##maf version=1 scoring=roast.v3.3
a score=1692.000000
s hg38.chr21_GL383579v2_alt        0 3 +   201197 ACT
s panTro5.chr21              8623673 3 + 33445071 act
i panTro5.chr21             N 0 C 0
s panPan2.chr21             22159209 3 + 46275980 act
i panPan2.chr21             N 0 C 0
s nomLeu3.chr25              9185403 3 + 32716333 act
i nomLeu3.chr25             N 0 C 0

a score=910.000000
s hg38.chr21_GL383579v2_alt        3 1 +   201197 a
s panTro5.chr21              8623676 1 + 33445071 a
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22159212 1 + 46275980 a
i panPan2.chr21             C 0 C 0
s nomLeu3.chr25              9185406 1 + 32716333 a
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19871111 1 - 90373283 a
i chlSab2.chr2              N 0 C 0

a score=6455.000000
s hg38.chr21_GL383579v2_alt        4 6 +   201197 gtgagt
s panTro5.chr21              8623677 6 + 33445071 gtgagt
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22159213 6 + 46275980 gtgagt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8140379 6 - 13858734 gtgagt
i gorGor5.CYUI01015003v1    N 0 C 0
s nomLeu3.chr25              9185407 6 + 32716333 gtgatt
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19871112 6 - 90373283 gtgaga
i chlSab2.chr2              C 0 C 0

a score=870372.000000
s hg38.chr21_GL383579v2_alt       10 479 +   201197 acttgccatatttgtatttttgtgccttgtttattttactaacgataatgatctccagatccatccgtgttgctgcaaatgac--gatttcatttttttatggctgaaaagtattccactgtatatatacaccacattttattcatccatccattgacaaacatataggttgatgctatatctttgctgttgtgaatagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttattttcctttgggtagatatccaatagtgggattactggattgaacaataattttatctttaggttttttgataaatctccatgctgtgttccacagtggctgtacaagtttatatttatgtgaacagtgtataagcgtttctctttttccacatccacaccaacatctgttattgttttgcctttttacaatagttattctgactggattaataacacatctcattataatttt
s panTro5.chr21              8623683 481 + 33445071 acttgccatatttgtatttttgtgccttgtttattttactaacgataatgatctccagatccatccatgttgctgcaaatgacaggatttcatttttttacggctgaaaagtattccactgtatatatacaccacattttattcatccatccattgacaaacatataggttgatgctatatctttgctgttgtgaatagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttatttttctttgggtagatatccagtagtgggattactggattgaacaataattttatctttaggttttttgataaatctccatgctgtgttccacagtggctgtacaagtttatattcatgtgaacagtgtataagcgtttctctttttccacatccacaccaacatctgttattgttttgcctttttacaatagttattctgactggattaataacacatctcattataatttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22159219 481 + 46275980 acttgccatatttgtatttttgtgccttgtttattttactaacgataatgatctccagatccatccatgttgctgcaaatgacatgatttcatttttttatggctgaaaagtattccactgtatatatacaccacattttattcatccatccattgacaaacatataggttgatgctatatctttgctgttgtgaatagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttatttttctttgggtagatatccagtagtgggattactggattgaacaataattttatctttaggttttttgataaatctccatgctgtgttccacagtggctgtacaagtttatattcatgtgaacagtgtataagcgtttctctttttccacatccacaccaacatctgttattgttttgcctttttacaatagttattctgactggattaataacacatctcattataatttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8140385 480 - 13858734 acttgccatatttgtatttttgtgcctcgtttattttactaacgataatgatctccagacccatccatgttgctgcaaatgacatgatttcatttttttatggctgaaaagtattccactgtatatatacaccacgttttattcatccatccattcacaaacatataggttgatgctatatctttgctgttgtgaatagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttattttcctttgggtagatatccaatagtgggattactggattgaacaataattttatctttagg-tttttgataaatcttcatgctgtgttccacagtggctatacaagtttatattcatgtgaacagtgtataagcgtttctctttttccacatccacaccaacatctgtttttgttttgcctttttacaatagttattctgactggattaataacacatctcattataatttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9185413 478 + 32716333 acttgccatatttgtatttttgtgcctcgtttattttactaaagataatgatctccagatccatccatgttgctgcaaatgacatgatttca--attttatggctgaaaagtattccactgtatatatacaccatgttttattcatccatccatcgacaaacatataggttgatgctatatctttgctgttgtgaatagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttattttcctttgggtagatatccaatagt-ggattactggattgaacaataattttatctttaggttttttgataaatctccatgctgtgttccacagtggctgtacaagtttatattcatgtgaacagtgtataagcgtttctctttttccacatccacaccaacatctgtcattgttttgcctttttacaatagttattctgactggattaataacgcatctcattataatttt
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19871118 480 - 90373283 acttgccaagtttgtatttttgtgcctggtttattttactaaagataatgatctccagatccatccttgttgctgcaaatgacatgatttca-ttttttatggctgaagagtattccactgtgtatatataccaccttttattcatccatccattgacaaacatgtaggttgatgctacatctttgctgttgtgaacagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttattttcctttgggtagatatccaatagtgggattgctggattgaacaataattttatctttaggttttttgataaatctacattctgtgctccacagtggctgtacaagtttatattcacatgaacagtgtataagcgtttctccttttccacatccacaacaacatctgttattgttttgcgtttttacaatagttattctgactgaattaacaacacatttcattatattttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3367935 480 +  7543664 acttgccatgtttgtatttttgtgcctggtttattttactaaggataatgatctccagatccatccttgttgctgcaaatgacatgatttca-ttttttatggctgaagagtattccactgtgtatatataccaccttttattcatccatccgttgacaaacatgtaggttgatgctacatctttgctgttgtgaacagtgcagcaataaacatgtgagtgctggtgtcctttgatatattgctttattttcctttgggtagatatccaataatgggattgctggattgaacaataattttatctttaggttttttgataaatctgcattctgtgctccacagtggctgtacaagcttatattcacatgaacagtgtataagcgcttctccttttccacatccacaacaacatctgttattgttttgcgttttttcaatagttattctgactgaattaacaacacatttcattatattttt
i manLeu1.NW_012103476v1    N 0 C 0

a score=6102866.000000
s hg38.chr21_GL383579v2_alt      489 2586 +   201197  
s panTro5.chr21              8624164 2585 + 33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22159700 2584 + 46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8140865 2587 - 13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9185891 2597 + 32716333  
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19871598 2585 - 90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3368415 2582 +  7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1     5136940 2578 - 13750039  
i colAng1.NW_012120598v1    N 0 C 0

a score=3884316.000000
s hg38.chr21_GL383579v2_alt     3075 1457 +   201197  
s panTro5.chr21              8626749 1456 + 33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22162284 1456 + 46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8143452 1457 - 13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9188488 1452 + 32716333  
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19874183 1460 - 90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3370997 1455 +  7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1     5139518 1448 - 13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528          24785843 1481 - 38779656  
i otoGar3.GL873528          N 0 C 0

a score=18273.000000
s hg38.chr21_GL383579v2_alt     4532 6 +   201197 gaaatg
s panTro5.chr21              8628205 6 + 33445071 gaaatg
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22163740 6 + 46275980 gaaatg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8144909 6 - 13858734 gaaata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9189940 6 + 32716333 gaaatg
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19875643 6 - 90373283 gaaatg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3372452 6 +  7543664 gaaatg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1     5140966 6 - 13750039 gcaatg
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168           8631028 6 + 13128814 GGATtg
i saiBol1.JH378168          N 0 C 0
s otoGar3.GL873528          24787324 5 - 38779656 -aaatg
i otoGar3.GL873528          C 0 C 0

a score=388787.000000
s hg38.chr21_GL383579v2_alt     4538 89 +   201197 tctatgtacacctttttctaatttttaatcagggtatttt--tttttttgctattgagtttcttatatattttggaaactaaA---CTATCAGA
s panTro5.chr21              8628211 88 + 33445071 tctatgtacacctttttctaatttttaatcagggtatttt--tttttt-gctattgagtttcttatatattttggaaactaaA---CTATCAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22163746 88 + 46275980 tctatgtacacctttttctaatttttaatcagggtatttt--tttttt-gctattgagtttcttatatattttggaaactaaA---CTATCAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8144915 89 - 13858734 tctatgtacacctttttctaatttttaatcagagtatttt--tttttttgctattgagtttcttatatattttggaaactaaA---CTATCAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9189946 89 + 32716333 tctatgtacacctttttctaacttttaatcagggtatgtg--tttttttgctattgagtttcttatatgttttggaaactaaA---CTATCAGA
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19875649 91 - 90373283 tctatgtacacctttctctaatttttaatcagggtatttg--tttttt-cctattgagtttcttatatattttggaaactaaACTCCTATCGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3372458 91 +  7543664 tctatgtgcacctttctctaatttttaatcagggtatttg--tttttt-gctattgagtttcttatatattttggaaactaaACTCCTATCAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1     5140972 91 - 13750039 tctatgtacacctttctctaatttttaatcagggtatttg--gttttt-gctattgagtttcttatatattttggaaactaaACTCCTATCAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21             26422680 93 + 50472720 TCTATGTATACATttttctcatttttaatcatggcatttgtatttttt-gatactgagtttattatatattttggaaattaaactcctatcaga
i calJac3.chr21             N 0 C 0
s saiBol1.JH378168           8631034 92 + 13128814 tctatgtatacctttttctcatttttaatcac-ttatttgtatttttt-gctattgagtttattatatgttttgaaaattaaactcctatcaga
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1     9085203 93 -  9889416 tctatgtatacccttttctcatttttaatcatggtatttgtatttttt-gctattgagtttattatatattttggaaattaaactcctatcaga
i aotNan1.NW_018487195v1    N 0 C 0
s otoGar3.GL873528          24787329 92 - 38779656 tttattcaggtcttttccccattttgaatcagatgattta--ttttcttggtgttaagtaccttatacattttgaatatttaccctttaccagt
i otoGar3.GL873528          C 0 C 0

a score=223197.000000
s hg38.chr21_GL383579v2_alt     4627 58 +   201197 TGttcaaatcaagttacattcctctgtttatgaagctattgatttttacagacagcct
s panTro5.chr21              8628299 58 + 33445071 TGttcaaatcaagttacattcctctgtttatgaagctattgatttttacagacagcct
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22163834 58 + 46275980 TGttcaaatcaagttacattcctctgtttatgaagctattgatttttacagacagcct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8145004 58 - 13858734 TGttcaaatcaagttacattcctccgtttatgaagctattgatttttacagacagcct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9190035 58 + 32716333 TGttcaaatcaagttacattcctctgtttatgaagctattgatttttacagacagcct
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19875740 58 - 90373283 TGttcaaatcaagttacattcctccgtttatgaagctattgatttttacagacaacct
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3372549 58 +  7543664 TGttcaaatcaagttacattcctccgtttatgaagctattgatttttacagacaactt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1     5141063 58 - 13750039 TGttcatatcaagttacattcctccgtttatgaagctattgatttttacagacaacct
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21             26422773 40 + 50472720 tgtT-----------------CTCTATTAATAAAGCTACTGA-TTTTACAGTTAGTCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168           8631126 40 + 13128814 tgtT-----------------Gtccattaatgaagctattga-ttttacagtcggtct
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1     9085296 40 -  9889416 tgtT-----------------Ttccattaatgaagctattga-ttttacagtgggtct
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528          24787421 46 - 38779656 tgTTCTAATAA------------ccatcaatgtggctgttgatttccacagccagcct
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31             17967851 58 + 39895921 tgttcaaaagaaatgacatccttcctttcaggaaaatgttgatttttatggccagtct
i canFam3.chr31             N 0 C 0

a score=659222.000000
s hg38.chr21_GL383579v2_alt     4685 112 +   201197 gttctagttaaagtaccatgccatagatctgggtagaaaatagcagttcacccaggtaataacatgtcagactgctcctgctcttactcaatgttgagtcattttaaataag
s panTro5.chr21              8628357 112 + 33445071 gttctagttaaagtaccatgctatagatctgggtagaaaatagcagttcacccaggtaataacatgtcagactgctcctgctcttactcaatgttgagtcattttaaataag
i panTro5.chr21             C 0 C 0
s panPan2.chr21             22163892 112 + 46275980 gttctagttaaagtaccatgctatagatctgggtagaaaatagcagttcacccaggtaataacatgtcagactgctcctgctcttactcaatgttgagtcattttaaataag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1     8145062 112 - 13858734 gttctagttaaagtaccatgctatagatctgggtagaaaatagcagttcacccaggtaataacatgtcagactgctcctgctcttactcaatgttgagtcattttaaataag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              9190093 112 + 32716333 gttctagttgaagtaccatgctatagatctgggtagaaaatagcagttcacccaggtaataacatgtcagactgctcctgctcttactcaatgttgagtcattttaaataaa
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2              19875798 112 - 90373283 gttctagttaaaataccatgctatagagctgggtagaaaatagcagttcacccaggtaataacatgtcagattgctgctgctcttactcaatgttcagtcattttaaataaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1     3372607 112 +  7543664 gttctagttaaagtaccatgctatagagctggggagaagacagcagttcacctgggtaataacatgtcagactgctcctgctcttactcaatattcagtcattttaaataaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1     5141121 112 - 13750039 gttctagttaaagtaccatgctatagatctgggtagaaaatagcagttcacccggctaataacatgtcagactgctcctgctgttactcagtgttcagtcattttaaataaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21             26422813 112 + 50472720 GTTCTAGTTAGAGTACCATGCCACAGAGCTGGGTAGAAAATAGGAGTTCATCCAAGTAATAACAAATCAGACTGCTCCTGCTCTTACTCAATATTCCGTCATTTATAATACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168           8631166 111 + 13128814 gttctagttagagtactatgctacagagctgggta-aaaataggagttcatccaagtaataacaagtgagactgctcctgctcttagtcagtgttctatcatttataataaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1    13850875 112 - 14377064 gttctagttagagtaccaggctacagagctgggtagaaaataggagttcatccaagtaataacaagtcagactgctcctgctcttactcaatgttctgtcatttataataaa
i cebCap1.NW_016107322v1    N 0 C 0
s aotNan1.NW_018487195v1     9085336 112 -  9889416 gttctagttagagtaccatgctacagagctgggtagaaaataggagttcgtccaagtaataacaagtcagactgctcctactcctactcaatgttctgtcatttataataaa
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528          24787467 103 - 38779656 gttctagttcaacttgcacgcta-agagctgtgtaggaaacaggagtaatcttaagcaataacatgtcaggctctcactgttcttaccccaaattcagtagttc--------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31             17967909 104 + 39895921 gttctggctaaaa--------catagagctaggtaggaaatagaaggaacctcaggcagtaatataaaagattcgcattgttcttactcaaagctcagtcgtttttcataaa
i canFam3.chr31             C 0 C 0

a score=578996.000000
s hg38.chr21_GL383579v2_alt      4797 51 +    201197 taa-tacttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
s panTro5.chr21               8628469 51 +  33445071 taa-tacttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22164004 51 +  46275980 taa-tacttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagtcctgaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8145174 50 -  13858734 t-a-tacttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9190205 51 +  32716333 taa-tacttcccaatttgttgaatacctttggttggtttta--------------------------------------------atagccctgaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160590191 51 - 185818997 Taa-tatttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i rheMac8.chr3              N 0 C 0
s macFas5.chr3              167227158 51 - 192294377 Taa-tatttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i macFas5.chr3              N 0 C 0
s macNem1.NW_012015021v1      4851731 51 -  30496662 Taa-tatttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i macNem1.NW_012015021v1    N 0 C 0
s cerAty1.NW_012002954v1     13374739 51 +  21915920 TAA-TATTTCCCAATTTGTTGAATACCTTTGGTTGATTTTA--------------------------------------------Atagtcctgaa
i cerAty1.NW_012002954v1    N 0 C 0
s chlSab2.chr2               19875910 51 -  90373283 taa-tatttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3372719 51 +   7543664 taa-tatctcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5141233 51 -  13750039 taa-tacttcccaatttgttgaatacctttgtttgatttta--------------------------------------------atagccttgaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26422925 50 +  50472720 TAA-TACTTCCCAATTTGTTGAATACCTTTGG-TGATTGTA--------------------------------------------ATAGCCCTGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8631277 51 +  13128814 taa-tacttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13850987 51 -  14377064 taa-tacttcccaatttgttgaacacctttggttgatttta--------------------------------------------atagccctgaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9085448 51 -   9889416 taa-tacttcccaatttgttgaatacctttggttgatttta--------------------------------------------atagccctgaa
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24787570 90 -  38779656 ------ctttatagattgtcgaatacctgtggtttatttaaaactttcagtaattcaataattactttctgcattgcgtatttgcatagctctgaa
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17968013 52 +  39895921 taactgctttctaacttgttgaatgcctttggtttattttc--------------------------------------------atagctgtaaa
i canFam3.chr31             C 0 I 149

a score=5227303.000000
s hg38.chr21_GL383579v2_alt      4848 502 +    201197  
s panTro5.chr21               8628520 502 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22164055 502 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8145224 502 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9190256 500 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160590242 499 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167227209 499 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4851782 499 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13374790 497 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19875961 499 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3372770 500 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5141284 497 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26422975 503 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8631328 508 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13851038 508 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9085499 505 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24787660 633 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17968214 526 +  39895921  
i canFam3.chr31             I 149 C 0

a score=3239974.000000
s hg38.chr21_GL383579v2_alt      5350 230 +    201197 AAAACATAAAGTGTGAGTTATTTTGGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATAACATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGTATACTTACTCAGAAAC
s panTro5.chr21               8629022 230 +  33445071 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGTTATTAAATGTAACAGATTAGAATCATAATTTCTACATAACATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTACTCAGAAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22164557 230 +  46275980 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATAACATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTACTCAGAAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8145726 230 -  13858734 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACAAGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATAACATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTACTCAGAAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9190756 230 +  32716333 AAAACATAAAGTGTGAGTCATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTAAGAAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160590741 230 - 185818997 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167227708 230 - 192294377 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4852281 230 -  30496662 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13375287 230 +  21915920 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19876460 230 -  90373283 AAACCATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACGTTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3373270 230 +   7543664 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5141781 230 -  13750039 AAAACATAAAGTGTGAGTTATTTTAGTGAAGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCAAATGTATTATGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCCGACACCAAATTCTTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26423478 230 +  50472720 AAAACATAAAGCATGAGTTATTCTAGTGATGCTTATTTTGCA-AAAATGCATAGTAACATGAATAC-TTAGTAGTACATTATTTCCAATGTATTGTGCTATTAAATGTAACAGATTAGAAGCAAAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCTGACACCAAATTCTTCTCATAAATATATAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8631836 230 +  13128814 AAAACATAAAGCATGAGTTATTTTAGTGATGTTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCCAATGTATTGTGCTATTAAATGTAACAGATTAGAATCAAAATTTCTACATATCATTAAAAAGCAGCTGTTATATTTATTTTCTGACACCAAATTCTTCTCATAAATATATAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i saiBol1.JH378168          C 0 I 150
s cebCap1.NW_016107322v1     13851546 230 -  14377064 AAAACATAAAGCATGAGTTATTTTAGTGATGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCCAATGTATTGTGCTATTAAATGTAACAGATTAGAATCAAAATTTCTACATATCATTAAAAAGCAGCTGTTATATTTATTTTCTGACACCAAATTCTTCTCATAAATATATAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9086004 230 -   9889416 AAAACATAAAGCATGAGTTATTTTAGTGATGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTACATTCTTTCCAATGTATTGTGCTATTAAATGTAACAGATTAGAATCAAAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTTTCTGACACCAAATTCTTCTCATAAATATATAACATTTA-TTTAAAATCTGGCATACTTATTCAGAAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24788293 229 -  38779656 AAAACATAGAGTGTAAGTTATTTTAGTGATGCTTATTGTGCA-AAAATGCTTAGTAACATGAATAC-TTAGTAGTGTATTCTTTCAAATGTATTGTGCTATTAAATGTAACAGATTAGAATCATAATTTCTACATATCATTAAAAAGCAGCTGTTGTATTTATTCTCCAACAGCAAATT-TTCTCATAAATATACAACATTTA-TTTAAAATCTGGCATACTCATTTAGGAAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17968740 229 +  39895921 AAAAC--AGAGTATGAGTTATTTTAGTGATACTTATTGTGCA-AAAATGCTTAGTAATGTGAATAC-TTAGTAGTACATTCTTTCAAATGTATTGTGCTATTAAATATAACAGATTAGAATCATAATTTCTACATATGATTAAAAAGCAGCTGTTGTATTTATTCTCCTACACCAAATTCCTCTCATAAATACACAACATTTATTTTAAAATCTGCCATACTCATTCAGGATA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2247720 198 +   3081153 AAAAAATAAAGTGTGAGTTATTTTAGATACGCTTATTGTGCATAAAATGCTTAGTAACACGAATACTTTAGCAGTGCATTCTTTCAAATGCA-----------------------------------TTCTACATATGATTGAAAAGCAGCTGTTGAATTCATTCTCCCACATCATATTCCTCACATAAACCCTCAAAATTTATTTTAAAATTTCACATATTAATTCAGGAAA
i dasNov3.JH578070          N 0 C 0

a score=9012352.000000
s hg38.chr21_GL383579v2_alt      5580  912 +    201197  
s panTro5.chr21               8629252  912 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22164787  912 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8145956  912 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9190986  951 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160590971  955 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167227938  956 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4852511  956 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13375517  956 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19876690  955 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3373500  954 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5142011  956 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26423708  948 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13851776  947 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9086234  943 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24788522  920 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17968969  962 +  39895921  
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2247918 1018 +   3081153  
i dasNov3.JH578070          C 0 I 1279
e saiBol1.JH378168            8632066  150 +  13128814 I

a score=79354.000000
s hg38.chr21_GL383579v2_alt      6492 7 +    201197 cagggtc
s panTro5.chr21               8630164 7 +  33445071 cagggtc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22165699 7 +  46275980 cagggtc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8146868 7 -  13858734 cagggtc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9191937 7 +  32716333 cagggtc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160591926 7 - 185818997 cagggtc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167228894 7 - 192294377 cagggtc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4853467 7 -  30496662 cagggtc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13376473 7 +  21915920 cagggtc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19877645 7 -  90373283 cagggtc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3374454 7 +   7543664 cagggtc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5142967 7 -  13750039 cagggtc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26424656 7 +  50472720 cagggtc
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13852723 7 -  14377064 cagggtc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087177 7 -   9889416 cagggtc
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24789442 7 -  38779656 caggatt
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17969931 7 +  39895921 ttggatt
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2248936 1279 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=4272715.000000
s hg38.chr21_GL383579v2_alt      6499 452 +    201197 aactgatggtatcagttgctg-aaacagaaaataccaaagaacaagacagattggggagaaaagattctaagccaactgttagtggcatgttaactttgagatgcttcttgacatctaaactgaaattttgaaggtttttaaagatagttaggctg--aatttacagaagagg-------------------tatgtgcaccatcagcttta-----t-----atttaaagacatg--g--agatatggggtcatattgagagtgaatgtgtttagag-------aaaagcaaaggactgagtcttctgtcaca-tatttaaccactcaccaattggttaaaaaatgagaagtcaccaaa--ggagagtggggaagaCATTAAAAGGATACATCATTGACCTTACCTCAAGGAACGTACATTTATAAAGACAGATATGTGCTTTCATTACTATAAT-GGGGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTATAAA
s panTro5.chr21               8630171 453 +  33445071 aactgatggtatcagttgctg-aaacagaaaataccaaagaacaagacagattggggagaaaaaattctaagccaactgttagtggcatgttaactttgagatgcttcttgacatctaaactgaaattttgaagatttttaaagatatttaagctg--aatttacagaagagg-------------------tatgtgcaccatcagcttta-----t-----atttaaagacata--g--agatatggggtcatattgagagtgaatgtatttagag-------aaaagcaaaggactgagtcttctgtcgca-tatttaaccactcaccaattggttaaaaaatgagaagtcaccaaa--ggagagtggggaagaCATTTAAAGGATACATCATTGATCTTACCTCAAGGAACGTACATTTATAAAGACAGATATGTGCTTTCATTACTATAATAGGGGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTATAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22165706 453 +  46275980 aactgatggtatcagttgctg-aaacagaaaataccaaagaacaagacagattggggagaaaaaattctaagccaactgttagtggcatgttaactttgagatgcttcttgacatctaaactgaaattttgaagatttttaaagatatttaagctg--aatttacagaagagg-------------------tatgtgcaccatcagcttta-----t-----atttaaagacata--g--agatatggggtcatattgagagtgaaagtatttagag-------aaaagcaaaggactgagtcttctgtcgca-tatttaaccactcaccaattggttaaaaaatgagaagtcaccaaa--ggagagtggggaagaCATTTAAAGGATACATCATTGACCTTACCTCAAGGAACGTACATTTATAAAGACAGATATGTGCTTTCATTACTATAATAGGGGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTATAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8146875 452 -  13858734 aactgatggtatcagttgctg-aaacagaaaataccaaagaacaagacagattggggagaaaagattctaagccaactgttagtggcatgttaactttcagatgcttcttgacatctaaactgaaattttgaagatttttaaagatatttaagctg--aatttacggaagagg-------------------tatgtgcaccatcagcttta-----t-----atttaaagacatg--g--agatatggggtcatattgagagtgaatgtatttagag-------aaaagcaaaggactgagtcttgtgtcgca-tatttaaccactcaccaattggttaaaaaatgagaagtcaccaaa--ggagagtggggaagaCATTTAAAGGATACATCATTGACCTTACCTCAAGGAACGTACATTTATAAAGACAGATATGTGCTTTCATTACTATAAT-GGGGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTATAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9191944 456 +  32716333 aactgatggtatcagttgctg-aaatagaaaacaccaaagaacaagacagattggggagaaaagattctaagccaacagttattggcatgttaacattgagatgcttcttgacatgtaaactgaaattttgaagatttttaaagttatttaagctg--aatttatggaagagg-------------------tatgtgcaccattggcttta-----t-----atttaaagacatgcag--agatatggggtcatattgagagtgaatgtatttagag-------aagagcaaaggattgagtcttgtgtcgcattatttaaccactcaccaattggttaaaaaatgagaagtcaccaaa--ggagagtggggaagaCCTTTAAAGGATACATCATTGACCTTCCCTGAAGGAACGTACATTTATAAAGACAGATGTGTGCTTTCATTACTATAATAGGGGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTATAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160591933 454 - 185818997 aactgatggtatcagttgcta-caacagaaaataccaaagaacaagacagactagggagaaaagattctaagccaattgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattttgaagatttttaaagatatttaagctg--cgtttacggaagagg-------------------tgtatgcaccagtggcttta-----t-----atttaaagacatgaag--agatatggggtcatactgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgtcgcattatttaaccactcaccaattggttaaaaaatgagaattcaccaaa--ggagagtggggaagaCATTTAAAGG--TCATCATTGACCTTCCCTCAAGGAACGTACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167228901 454 - 192294377 aactgatggtatcagttgcta-caacagaaaataccaaagaacaagacagactagggagaaaagattctaagccaattgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattttgaagatttttaaagatatttaagctg--cgtttatggaagagg-------------------tgtatgcaccagtggcttta-----t-----atttaaagacatgaag--agatatggggtcatactgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgtcgcattatttaaccactcaccaattggttaaaaaatgagaattcaccaaa--ggagagtggggaagaCATTTAAAGG--TCATCATTGACCTTCCCTCAAGGAACGTACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4853474 454 -  30496662 aactgatggtatcagttgcta-caacagaaaataccgaagaacaagacagactagggagaaaagattctaagccaattgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattttgaagatttttaaagatatttaagctg--cgtttatggaagagg-------------------tgtatgcaccagtggcttta-----t-----atttaaagacatgaag--agatatggggtcatactgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgtcgcattatttaaccactcaccaattggttaaaaaatgagaattcaccaaa--ggagagtggggaagaCATTTAAAGG--TCATCATTGACCTTCCCTCAAGGAACGTACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTAGCAGTTGCTGTATGTAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13376480 454 +  21915920 aactgatggtatcagttgcta-aaacagaaaataccaaagaacaagacagattggggagaaaagattctaagccaactgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattctgaagatttttaaagatatttaagctg--agtttatggaagagg-------------------tgtatgcactagtggcttta-----t-----atttaaaaatatgaag--agatatggggtcatactgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgacgcattatttaaccactcaccaattggttaaaaaatgagaattcaccaaa--ggagagtggggaagaCATTTAAAGG--TCATCATTGACCTTCCCTCAAGGAACGTACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19877652 454 -  90373283 aactgatggtatcagttgcta-aaacagaaaataccaaagaacaagacagactagggagaaaagattctaagccaattgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattttgaagatttttaaagatatttaagctg--agtttatggaagagg-------------------tgtatgcaccagtgacttta-----t-----atttaaagacatgaag--agatatggggtcacactgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgttgcattatttaaccactcatcaattggttaaaaaatgagaattcaccaaa--ggagggtggggaagaCATTTAAAGG--TCATCATTGACCTTCCCTCAAGGAATGTACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTAAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3374461 454 +   7543664 aactgatggtatcagttgcta-caacggaaaataccaaagaacaagacagattggggagaaaagattctaagccaattgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattttgaagatttttaaagatatttaatctg--agtttatggaagagg-------------------tgtatgcactagtggcttta-----t-----atttaaagatatgaag--agatatggggtcatactgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgtcgcattatttaaccactcaccaattggttaaaaaatgagaattcaccaaa--ggagagtggggaagaCATTTAAAGG--TCATCATTGACCTTCCCTCAAGGAACATACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5142974 452 -  13750039 aactgatggtatcagttgcta-aaacagaaaataccaaagaacaagacagtatggggagaaaagattctaagccaactgttattgccttgttaactttgagatgcttcttggcatctaaactgaaattttgaagatttttaaagatatttaagctg--agtttatggaagagg-------------------tgtgtgcatcagtggcttta-----t-----atttaaagacgtgaag--agatatggggtcacatcgagagtgaatgtatttagag-------aagagcaaaggactgagtcttgtgtcgcatta--taacgactcaccaattggttgaaaaatgaaaattcaccaaa--ggagagtggggaagGCATTTAAAGG--TTATCATTGACCTTCCCTCAAGGAACGTACATTTATAAAGACAGATATATGCTTTCATTACTATAATAGGAGGAAGCTTTGATAAGTGTATCAGTTGCTGTATGTAAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26424663 458 +  50472720 aactgatggtatcagttgctg-aaacaacaagttccaaagaacaagacagattggg--gagaagattctaagccaactgttactgacattttagctttgagatgcttcttggcatctaaactgaaattttgaagattttaaaaaatatttaaactg--aattcatggaggagg-------------------tatatgcaccctcagtttta-----t-----atttaacgatatgaag--atatatggggttatatcgagagcgaatctgtttacagaagagcaaagagcaaaggactgaatcttgtgtctcattctttaatcaaccaccaattggttaaaaaatgagaagtcaataaa--ggacagtggagaagACATTTAAAAGATACTTCATTGACCTTCCCTCAAGGAACACATGTTTATAAAGACAGATATGTGCTTTCATTACTATAAC---GGGAAGTTTTGATAGGTGTATCAGTTGCTGCATGTATAAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13852730 449 -  14377064 aactgatggtatcagttgctg-aaacaacaaattcc-aagaacaagacagattggggagagaagattctaggccaactgttattgacatgttaactttgagatgcttcttggcatccaaactgaaagtctgaagatttttaaagatatttaagctg--agttcatggaagagg-------------------tatgtgcaccc----------------------ttaaagacatgaag--agttatgaggttatattgagagtgaatgtgtttagagaagagcaaagagcaaaggactaagtcttgtgtctcattctttaatcacccaccaattgattaaaaaatgagaagtcaccaaa--agagagtggggaagaCATTTAAAGGATACTTCATTGACCTTCCCTCAAGGAATGCATGTTTATAAAAACAGATATGTGCTTTCATTACTGTAAC-AGGGGAAGCTTTGCTAAGTGTATCAGTTGTTGCATATATAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087184 462 -   9889416 aacagatggtatcagttgctg-aaacaacaaattccaaagaacaagaaagattggggagagaagagtctaagccaactgttattgacatgttaactttgagatgcttcttgacatctaaactgaaattctgaagatttttaaagatatttaacctg--agttcatggaagagg-------------------tatgtgcaccctcagtttta-----t-----atttaaagacatgaag--agttatggggttatttcaagagtgaatgtgtttacagaagagcaaagagcaaaggactgagtcttgtgtctcattctttaatcatccaccaattggttaaaaaatgagaagtcaccaaa--ggagagtggggaagaCATTTAAGGGATACTTCATTGACCTTCCCTCAAGGAACGCATGTTTATAAAGACAGATATGTGCTTTCATTACTATAAT-AGTAGAAGCTTTGGTAAGTGTATCAGTTGCTGCATATATAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24789449 439 -  38779656 aactggtggtgtcaatcactgaaaatagaaaacacaggaggagaaaggggattgagcagggaagattccaaactcactgttactggcatattgattttgagatga-tcttaatatctcaactaagatacttaaaattgttttagttacttgaatca--aggccagagaagcagcagtaattaattaaaatgttatgggcatgaccaacttta-----tctgacatttaatgacacggaa--agacgtgaagtcataatgagaatgaaagtacttagggaagagcaaagagcaaaggactaagtcttacggttctgtgt-----cactcacaaattggttaaaaaacgagaag-------------------------------------ccaTTGCTGACCTTTGCTTAAGAAACATACATTTACAAGGGCAGATATGTACTTTCATTACTATAGCAAAGGGAAACTTTTATAAATATATCAATCTCTAT--------A
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17969938 444 +  39895921 aaatgctaatatcaattgtgg-aaatggaaaatac---aggaagagaaggtttggagaggtgtaaatccaaacaaactgttgtgggcatgttgattttgagatg-ttctcaatagccaaactgagatgttgaatactgttttaggtatttgagtctccagttcagagaggacatagggactaaataaaatattgtggtcatcatcggccttaaatatt-----gtttaaagacaaggag--agagaagaact---------------------------------aagagtgaagaactaaggcttgaggctc-----tgcagcactcacagattggttaaaggatgagacatcttcaaaacagacACTTGAGTAAACATTTAAAGA-CATGTTACTGACTTTTACCGAAGGAAAGCCTGTTTACAAGGACAGATATATCTTTTCATTACTATAACAGGGGGAAACCTTCATAAATGTATTAGCTGTTGTAGAT----A
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2250215 454 +   3081153 AACTTGTGGTGTCAATTGTTG-AAGTGAAAAATACACAAACagaagtagtttagggtagagaaagctatga----atttgtattggcatacttattttgtggtgcttattaatatccaaac-aaaatgttgagtgtctgagcggaaacagggacta--aatt-----atgtaa-------------------tatgctcatcaccaaatttaaaaagt-----gtgtgaaagcatagggatagagataatattgggttgggaattaaaataagtagagaaggaaaaagag-aaaggactgagccttataac-----agtgcaacccttacagattgggtaaaggaggaggatccagaaaa--gaagattgggGTCACATTTTAAAAGATAATTTATTGACCTTCACTCTAGAACAGTATATTTACCAGGGCATATAGCTACTTTTATCAATTTAAGAAGAGAAAACTTTTATGTATGTATTAGTTGTTGTATAGATAGA
i dasNov3.JH578070          I 1279 I 661
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=272948.000000
s hg38.chr21_GL383579v2_alt      6951 28 +    201197 TAAAGTCCTACTACATTTCAGATAAGAA
s panTro5.chr21               8630624 28 +  33445071 TAAAGTCCTACTACATTTCAGATAAGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166159 28 +  46275980 TAAAGTCCTACTACATTTCAGATAAGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147327 28 -  13858734 TAAAGTCCTACTACATTTCAGATAAGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192400 28 +  32716333 TAAAGTCCTACTACATTTCATATAAGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592387 27 - 185818997 TAAAGTCCTACTACA-TTCagataagaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229355 27 - 192294377 TAAAGTCCTACTACA-TTCagataagaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4853928 27 -  30496662 TAAAGTCCTACTACA-TTCagataagaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13376934 27 +  21915920 TAAAGTCCTACTACA-TTCAGATAAGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878106 27 -  90373283 TAAAGTCCTACTACA-TTCAGATAAGCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3374915 27 +   7543664 TAAAGTCCTACTACA-TTCAGATAAGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143426 27 -  13750039 TAAAGTCCTACTACA-TTCagataagaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425121 28 +  50472720 TAAAGTCCTACTACATTTCAGATAAGAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853179 28 -  14377064 TAAAGTCCTACTACATTTCAGATAAGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087646 28 -   9889416 TAAAGTCCTACTACATTTCAGATAAGAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24789888 28 -  38779656 TAAAGTCATATTGAATTTCAAATGAAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17970382 28 +  39895921 TTGAATCCTATAGCATTCCAGAGGAGAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2250669 661 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=1107174.000000
s hg38.chr21_GL383579v2_alt      6979 137 +    201197 ACATggccaggcaagatggcttatgtctttaatctcagctgtttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaacctggataatgt-aagaagacctcgtctcta-taaaaaatt-aaaaatt
s panTro5.chr21               8630652 136 +  33445071 ACATggccaggcaagatggcttatgtctttaatctcagctgtttgggaagccaagtggaaagattgctggaggccaggagttcaagaccaacctggataacat-aagaagaccttgtctcta-taaaaaact--aaaatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166187 136 +  46275980 ACATggccaggcaagatggcttatgtctttaatctcagctgtttgggaagccaagtggaaagattgctggaggccaggagttcaagaccaacctggataacat-aagaagaccttgtctcta-taaaaaact--aaaatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147355 136 -  13858734 ACATggccaggcaagat-gcttatgtccttaatctcagctgtttgggaagccaagtggaaagagtgcttgaggccaggagttcaagaccaacctggataacat-aagaagaccctgtctcta-taaaaaatt-aaaaatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192428 136 +  32716333 ACATggccaggcaagatggcatatgcctttaatctcagctgtttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaacctggataacat-aagaagaccctgtctcta-taaaaaatt--aaaaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592414 138 - 185818997 acatggccaggcaagatggcttatgcctttaatctcagctgtttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaatctggataacat-aagaagatcctgtctcta-taaaaaaattaaaagtt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229382 138 - 192294377 acatggccaggcaagatggcttatgcctttaatctcagctgtttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaatctggataacat-aagaagatcctgtctcta-taaaaaaattaaaagtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4853955 138 -  30496662 acatggccaggcaagatggcttatgcctttaatctcagctgtttgggaagccaagtagaaagattgcttgaggccaggagttcaagaccaatctggataacat-aagaagatcctgtctcta-taaaaaaattaaaagtt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13376961 139 +  21915920 ATATggccaggcaagatggcttatgcctttaatctcagctgtttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaacctggataacataaagaagaccctgtctcta-taaaaaaattaaaaatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878133 138 -  90373283 ACATggccaggcaagatggcttatgcctttaatctcagctatttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaacctggataacat-aagaagatcctgtctcta-taaaaaatttaaaaatt
i chlSab2.chr2              C 0 I 262
s manLeu1.NW_012103476v1      3374942 139 +   7543664 ACATggccaggcaagatggcttaagcctttaatctcagctgtttgggaagccaagtggaaagattgcttgaggccaggagttcaagaccaacctggataacataaagaagaccctgtctcta-taaaaaaattaaaaatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143453 138 -  13750039 acatgaccaggcaagatggcttatgcctttaatctcagctgtttggaaagccaagtggaaagactgcttgaggccacgagttcaagaccaacctggataacat-aagaagatcctgtctcta-taaaaaaattaaaaatt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425149 139 +  50472720 ATATggtcaggcaagaaggctcatgcctttaatctcagatgtctgggaagccaagtggaaagattgcttgagaccaggagttaaagacaaacctgggtaacat-aagaagaccctgcctctatttaaaaaattaaaaatt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853207 139 -  14377064 ACATggccaggcaagatggctcatgcctttaatctcagatgtctgggaagccaagtggaaagattgcttgagaccaggagttaaagacaaacctgggtaacat-aagaagaccctgcctctatttaaaaaattaaaaatt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087674 138 -   9889416 ATATggccaggcaagatggctcatgcctttaatctcaaatgtctgggaagccaagtggaaagactgcttgagaccagaagttcaagacaaacctgggt-acat-aagaagaccctgcctctatttaaaaaattaaaaatt
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17970410  29 +  39895921 ----------------------------------------------------------AGAGAATGCTT-----------------------CTGG--------CAGAAGATCATTTC----------------------
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2250669 661 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I
e otoGar3.GL873528           24789916   0 -  38779656 C

a score=431156.000000
s hg38.chr21_GL383579v2_alt      7116 52 +    201197 ggctgagcatggtggcacatgcctgtagttctaaccactcttgaggctgatg
s panTro5.chr21               8630788 52 +  33445071 ggctgagcatggtggcacatgcctgtagttctaaccactcttgaggctgatg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166323 52 +  46275980 ggctgagcatggtggcacatgcctgtagttctaaccactcttgaggctgatg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147491 52 -  13858734 ggctgagcatggtggcacaggcctgtagttctaaccactcttgaggctgatg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192564 52 +  32716333 tgctgagcatggtggcacatgcctgtagttctaaccactcttgaggctcatg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592552 52 - 185818997 ggctgagcatgatggcatatgcctgtagttgtaaatactcttgaggctgatg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229520 52 - 192294377 ggctgagcatgatggcatatgcctgtagttgtaaatactcttgaggctgatg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854093 52 -  30496662 ggctgagcatgatggcatatgcctgtagctgtaaatactcttgaggctgatg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377100 52 +  21915920 ggctgagcatgatggcatatgcctgtagttgtaactactcttgaggctgatg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878533 52 -  90373283 ggctgagcatgatggcatatgcctgtagttgtaaacactcttgaggctgatg
i chlSab2.chr2              I 262 C 0
s manLeu1.NW_012103476v1      3375081 52 +   7543664 ggctgagcatgatggcatatgcctgtagttgtaactactcttgaggctgatg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143591 52 -  13750039 ggctgagcatgatggcatatgcctgtagttgtaaatactcttgaggctgatg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425288 52 +  50472720 ggctgagcgtggtggtgcatgcctatagttctagctactctggaggttgatg
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853346 52 -  14377064 gactgagcatggtggcacatgtctatagttccagctactctggaggctgatg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087812 52 -   9889416 ggctgagcatggtggtgcatgcctatagttctagctactctggaggctgatg
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17970439 19 +  39895921 --------------------------AGTT-------TTCTTGAAGTTGTTG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2250669 661 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I
e otoGar3.GL873528           24789916  0 -  38779656 C

a score=988689.000000
s hg38.chr21_GL383579v2_alt      7168 132 +    201197 tgagaggattattggagcccaggagtttgagactgcagtgagctaggattacactattacactccagcctggtcaacaaaggaagaccttgtctttgaaacaacaaccaaaagaaaacaaaaagaaaaaAGA
s panTro5.chr21               8630840 132 +  33445071 tgagaggattattggagcccaggagtttgagactgcagtgagctaggattacactattacactccagactggttaacaaaggaagaccttgtctctgaaacaacaaccaaaagaaaacaaaaagaaaaaAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166375 132 +  46275980 tgagaggattattggagcccaggagtttgagactgcagtgagctaggattacactattacactccagactggtcaacaaaggaagaccttgtctctgaaacaacaaccaaaagaaaacaaaaagaaaaaAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147543 131 -  13858734 tgagaggatta-tggagcccaggagtttgagactgcagtgagctaggattacactattacactccagcctggtcaacaaaggaagaccttgtctctgaaacaacaaccaaaagaaaacaaaaagaaaaaAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192616 132 +  32716333 tgagaggattattggatcccaggagtttgagactgcagtgagctaggattacattattacactccagcctggtcaacaaaggaagaccttgtctctgaaacaacaaccaaaagaaaacaaaaagaaaaaAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592604 124 - 185818997 tgagaggattgtt--------gatgtttgagactgcagtgagctaggattacactattacactccagtttggacaacaaaggcagaccttgtcgctgaaacaaccaccaaaagaaaacaaaaagaaaaaaga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229572 124 - 192294377 tgagaggattgtt--------gatgtttgagactgcagtgagctaggattacactattacactccagtttggacaacaaaggcagatcttgtcgctgaaacaaccaccaaaagaaaacaaaaagaaaaaaga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854145 124 -  30496662 tgagaggattgtt--------gatgtttgagactgcagtgagctaggattacactattacactccagtttggacaacaaaggcagaccttgtcgctgaaacaaccaccaaaagaaaacaaaaagaaaaaaga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377152 132 +  21915920 tgagaggattgttagcgcctgggagtttgagactgcagtgagctaggattacactattacactccagtttggacaacaaaggcagaccttgtctctgaaacaacaaccaaaaggaaacaaaaagaaaaaAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878585 132 -  90373283 tgagaggactgttgatgcccgggagtttgagactgcagtgagctaggattacactattacactccagtttggacaacaaagacagacctcgtcgctgaaacaacaaccaaaagaaaacaaaaagaaaAAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375133 132 +   7543664 tgagaggattgttagcgcctgggagtttgagactgcagtgagctaggattacactattacactccagtttggacaacaaaggcagaccttgtctctgaaacaacaaccaaaagaaaacaaaaagaaaaaAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143643 132 -  13750039 tgagaggattgttgatgcctgggagtttgagactgcagtgagctgggattacactattatactcccgtttggacaacaaaggcagaccttgttgctgaaacaaccaccaaaagaaaacaaaaagaaaaaaga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425340 119 +  50472720 tgagaggattgttggggcccaggagtttgaggctgtggtaagcgagcattacactactatactccagcctgatcaacgaaggcaaaccttgtctctgaaacaacaacaaaaag-------------aaaaAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853398 125 -  14377064 tgagaggattgttggggcccaggagactgaggctgtggtaagtcaggattacactactatattccagcctgatcaacaaaggcagaacttgtctctgaaacagcaacaaaaag-------aaaaaaaaaaaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087864 124 -   9889416 tgagaggattgttggggcccaggagtttgatgctgtcgtaagccaggattacactactatactccagcctgctcaacaaaggcagaccttgtctctgaaacaacaacaaaaag--------aaaaaaaaaaa
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2250669 661 +   3081153 I
e canFam3.chr31              17970458   0 +  39895921 C
e saiBol1.JH378168            8632066 150 +  13128814 I
e otoGar3.GL873528           24789916   0 -  38779656 C

a score=51244.000000
s hg38.chr21_GL383579v2_alt      7300 6 +    201197 AAAGAA--
s panTro5.chr21               8630972 6 +  33445071 AAAGAA--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166507 6 +  46275980 AAAGAA--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147674 6 -  13858734 AAAGAA--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192748 6 +  32716333 AAAGAA--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592728 6 - 185818997 aaagaa--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229696 6 - 192294377 aaagaa--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854269 6 -  30496662 aaagaa--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377284 6 +  21915920 AAAGAA--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878717 6 -  90373283 AAAGAA--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375265 6 +   7543664 AAAGAA--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143775 6 -  13750039 aaagaa--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425459 6 +  50472720 TAGGAA--
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853523 6 -  14377064 aaagaa--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087988 6 -   9889416 aaaGAA--
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2251330 6 +   3081153 --AGAAAG
i dasNov3.JH578070          I 661 C 0
e canFam3.chr31              17970458 0 +  39895921 C
e saiBol1.JH378168            8632066 150 +  13128814 I
e otoGar3.GL873528           24789916 0 -  38779656 C

a score=480160.000000
s hg38.chr21_GL383579v2_alt      7306 47 +    201197 AGATAACTTTTAGGCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
s panTro5.chr21               8630978 47 +  33445071 AGATAACTTTTAGGCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166513 47 +  46275980 AGATAACTTTTAGGCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147680 47 -  13858734 AGATAACTTTTAGGCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192754 47 +  32716333 AGATAACTTTTAGGCAGGGATAA-TTCAGAGTTTTC-TTGAAATTTCTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592734 47 - 185818997 agataaCTTTTAGCCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229702 47 - 192294377 agataaCTTTTAGCCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854275 47 -  30496662 agataaCTTTTAGCCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377290 47 +  21915920 AGATAACTTTTAGCCAGGGATAA-TTTAGAGTTTTC-TTGAAATTTCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878723 47 -  90373283 AGATAACTTTTAGCCAGGGATAA-TTTAGAGTGTTC-TTGAAATTTCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375271 47 +   7543664 AGATAACTTTTAGCCAGGGATAA-TTCAGAGTTTTC-TTGAAATTTCTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143781 47 -  13750039 agataaCTTTTAGCCAGGGATAA-TTTAGCGTTTTC-TTGAAATTTCTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425465 48 +  50472720 AAATAACTTTTAGCCAGGGATAA-TTTAGACTTTTCTTTGAAATTTCTG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853529 48 -  14377064 aaaTAACTTTTAGCCAGGGATAA-TTTAGACTTTTCTTTGAAATTTCTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9087994 48 -   9889416 AGATAACTTTTAGCCAGGGACAA-TTTAGACTTTTCTTTGAAATTTCTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24789916 47 -  38779656 AGTTAACTTCGTTTAAGGAATAA-TTTAGAGTTTTC-TTAAAGTTTCTG
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2251336 48 +   3081153 AGGTAATTGCTAGCATGGGTTAATTTTAGACTTTCC-TTGAAATTTTAG
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              17970458  0 +  39895921 C
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=1133269.000000
s hg38.chr21_GL383579v2_alt      7353 108 +    201197 CTCTGCTTCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCATT
s panTro5.chr21               8631025 108 +  33445071 CTCTGCTTCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCCCCTTTCTCCATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166560 108 +  46275980 CTCTGCTTCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCCCCTTTCTCCATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147727 108 -  13858734 CTCTGCTTCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAGTGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192801 108 +  32716333 CTCTGCTTCTTCTCTTCTTTCAAATAATCTGT-TCCTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCATCACTGTCCCTC----ATAATCTCCTTTCTCCATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592781 108 - 185818997 CTCCACCCCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCATTGTCCCTC----ATAATCTCCTTTCTCCCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229749 108 - 192294377 CTCCACCCCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854322 108 -  30496662 CTCCACCCCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377337 108 +  21915920 CTCCGCCCCTTCTCTTCTTTCAAATAATCTGT-GCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878770 108 -  90373283 CTCCTCCCCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375318 108 +   7543664 CTCCGCCCCTTCTCTTCTTTCAAATAATCTGT-GCTTTCAAGAGTTTCAAATGAATGAACAATGTGTCAATGAATGCACCACTGTCCCTC----ATAATCTCCTTTCTCCATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143828 108 -  13750039 CTCCGCCCCTTCTCTTCTTTCAAATAATCTGT-TCTTTCAAGAGTTTCAAATGAATGAACAATATGTCAATGAATGCACCCCTGTCCTTC----ATAATCTCCTTTCTCCATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425513 108 +  50472720 CTCTGCCCCTTCTCTTCTTTCAAATAATCTCT-TCTATCAAGAGTGTCAAATAAATGAACAATGTGTCATTGAATGCACCACTCTCCCTC----ATAATCTCCTTTCTTCATT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853577 108 -  14377064 CTCTTCCCCTTCTATTCTTTCAAATAATCTGT-TCTATCAAGAGTTTCAAATAAATGAACAATGTGCCAATGAATTCACCACTCTCCCTC----ATAATCTCCTTGCTTCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9088042 108 -   9889416 CTCTACCCCTTCTCTTCTTTCAAATAATCTGT-TCTATCAAGAGTTTCAAATAAATGAACAATGTGTCAATGAATGCACTACTCTCCCTC----ATAATCTCCTTTCTTCATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24789963 107 -  38779656 TTCT-TCCCTCCTATTCTGTTAAATAATATGT-TTTATGAAATGTCTCAAAAGACTGGACAATGCACCAATGAATCAAGCGTTTCCTGAT----ACATCCCCCTACCTCCATT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17970458 101 +  39895921 CTCTGCT-----TTTTCTTTCAAATAATGTTT-TTTATCAAAAATCTCAATTGAATGGACAATGGGTCA------GCACACCTATCTCTCCTCAACATTCTCCTTACTCCATT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2251384  98 +   3081153 CCCTCCCCTTTCTCTTCTTTGAAATAATTTGTATTTATTAAAAGTCTCAATTGAATGGCCCATGGGCCAATGA-----------TTCAGT----CTTCTCCTCTTCCTCCATT
i dasNov3.JH578070          C 0 I 448
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=74291.000000
s hg38.chr21_GL383579v2_alt      7461 7 +    201197 CAATGCT
s panTro5.chr21               8631133 7 +  33445071 CAGTGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166668 7 +  46275980 CAGTGCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147835 7 -  13858734 CAGTGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192909 7 +  32716333 CAGTGCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592889 7 - 185818997 CAGTGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229857 7 - 192294377 CAGTGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854430 7 -  30496662 CAGTGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377445 7 +  21915920 CAGTGCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878878 7 -  90373283 CAGTGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375426 7 +   7543664 CAGTGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143936 7 -  13750039 CAGTGTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425621 7 +  50472720 CAGTGCT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853685 7 -  14377064 CAGTGCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9088150 7 -   9889416 CAGTGCT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24790070 7 -  38779656 TAGTGTT
i otoGar3.GL873528          C 0 I 4476
s canFam3.chr31              17970559 7 +  39895921 TAATGCT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=536844.000000
s hg38.chr21_GL383579v2_alt      7468 65 +    201197 GGATGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAATCAGTCATTGACTAGACAGTGTCCTGT
s panTro5.chr21               8631140 65 +  33445071 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAATCAGTCATTGACCAGACAGTGTCCTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166675 65 +  46275980 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAATCAGTCATTGACCAGACAGTGTCCTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147842 65 -  13858734 GGCTGGTGCAGTGTAGTTACTTCTCACACAAGG-TCAAATCAGTCATTGACTAGACAGTGTCCTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192916 65 +  32716333 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCGTTGACTAGACAGTGTCCTGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592896 65 - 185818997 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCATTGACTAGACAGTGTCCTGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229864 65 - 192294377 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCATTGACTAGACAGTGTCCTGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854437 65 -  30496662 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCATTGACTAGACAGTGTCCTGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377452 65 +  21915920 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCATTGACTAGACAGTGTCCTGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878885 65 -  90373283 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCATTGACTAGACAGTGTCTTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375433 65 +   7543664 GGCTGGTGCAGTGTAGTTACTTCTTACACATGG-TCAAGCCAGTCATTGACTAGACAGTGTCCTGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5143943 65 -  13750039 GGCTGGTGCAGTGTAGTTACTTCTTACACACGG-TCAAGCCAGTCATTGACTAGACAGTGTCCTGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425628 47 +  50472720 AGCTGGTGCAGTGTAA-----ACTT--------------CCAGTCATTGACTAGATTGTGTTCTAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853692 60 -  14377064 GGCTGGTGCAGTGTAA-----ACTTACACACAG-TCTAGCCAGTCATTGACTAGACAATGTTCTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9088157 60 -   9889416 GACTGGTGCAGTGTAA-----ACTTACACACAG-TCAAGCCAGTCATTGACTAGACAGTGTTCTAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24794553 66 -  38779656 GAACTGTGCAGAGCAGTTCCTTCTTTCATATAATTTAAGCCAGTCATCAATTACACAGTGTCCTGT
i otoGar3.GL873528          I 4476 C 0
s canFam3.chr31              17970566 33 +  39895921 -------------------------ACAGATAT-TAGAGTAAATAAC-------ATGGCCTCCTGC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=1131630.000000
s hg38.chr21_GL383579v2_alt      7533 122 +    201197 GGTTTTGCATGG---AAATAAATTGAGATTT-ATCCCAGTTAACTGAATCAATAAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTCGATTTATGTTAATTTCAGATGCTGGTGTTATATTG
s panTro5.chr21               8631205 122 +  33445071 GGTTTTACATGG---AAATAAATGGAGATTT-ATCCCAGTTAACTGAATCAATAAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTCGATTTATGTTAATTTCAGATGCTGGTGTTATATTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166740 122 +  46275980 GGTTTTACATGG---AAATAAATGGAGATTT-ATCCCAGTTAACTGAATCAATAAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTCGATTTATGTTAATTTCAGATGCTGGTGTTATATTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8147907 122 -  13858734 GGTTTTGCATGG---AAATAAATTGAGATTT-ATCCCAGTTAACTGAATCAATAAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTCGATTTATGTTAATTTCAGATGCTGGTGTTATATTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9192981 122 +  32716333 GGCTTTGCATGG---AAATAAATTGAGATTT-ATCTCAGTTAACTGAATCAATAAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTCGATTTATGTTAATTTCAGATGCTGGTGTTATATTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160592961 122 - 185818997 GGCTTTGCATGG---AAATAAATTAAGATGT-ATCCCAGTTAACTGAACCAATGAGTAAAACAGAATGATGAAGAAAAGTAAAGTACAGTGGATTTATGTTAATTTCAGATGTTGGTGTTATATTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167229929 122 - 192294377 GGCTTTGCATGG---AAATAAATTAAGATGT-ATCCCAGTTAACTGAACCAATGAGTAAAACAGAATGATGAAGAAAAGTAAAGTACAGTGGATTTATGTTAATTTCAGATGTTGGTGTTATATTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854502 122 -  30496662 GGCTTTGCATGG---AAATAAATTAAGATAT-ATCCCAGTTAACTGAACCAATGAGTAAAACAGAATGATGAAGAAAAGTAAAGTACAGTGGATTTATGTTAATTTCAGATGTTGGTGTTATATTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377517 122 +  21915920 GGCTTTGCATGG---AAATAAATTAAGATGT-ATCCCAGTTAACTGAACCAATGAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTGGATTTATGTTAATTTCAGATGTTGGTGTTATATTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19878950 122 -  90373283 GGCTTTGCATGG---AAATAAATTAAGATGT-ATCCCAGTTAACTGAACCAATGAGTACAACAGAATGATGAAGAAAAGTAGAGTACAGTGGATTTATGTTAATTTCAGATGTTGGTGTTATATTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375498 122 +   7543664 GGCTTTGCATGG---AAATAAACTAAGATGT-ATCCCAGTTAACTGAACCAATGAGTAAAACAGAATGATGAAGAAAAGTAGAGTAGAGTGGATGTATGTTAATTTCAGATGTTGGTGTTATATTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5144008 122 -  13750039 GGCTTTGCATGG---AAATAAATTAAGATGT-ATCCCAGTTAACTGAACCAATGAGTAAAACAGAATGATGAAGAAAAGTAGAGTACAGTGGATTTATGTTAATTTCAGATGTTGGTGTTATATTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425675 122 +  50472720 GGCTTTGCATGG---AAAGAAACTGAGATTT-ATCCCAGTCAACTGAATTAACGAGTAAAAGAGAATGATGAAGAAAAGTGCAATACAGTTGATTTATGTTAATTTCAGATGTTGGTGTCATAATA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853752 122 -  14377064 GGCTTTGCATGG---AAAGAAATTGAGATTT-ATTCCAGTCAACTGAATCAATGAGTAAAACAGAATGATGAAGAAAAGTGCAATACAGTTGATTTATGTTAATTTCAGATGTTGGTGTCATAATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9088217 122 -   9889416 GGCTGTGCATGG---AAAGAAACTGAGATTT-ATCCCAGTCAATTGAATCAATGAGTAAAACAGAATGATGAAGAAAAGTGCAATACAGTTGATTTATGTTAATTTTAGATGTTGCTGTCATAATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24794619 126 -  38779656 GTGCATGCATGGAAAAAAAAAATCAAAACTTAATCTCAGTTGGCTGAATCAATGAGTAAAAGAGAATGAGAAACAAAAACGGAGTTTAATGGATTTATGCTAATCACAGGTGGTGGTGTTCCATTG
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e canFam3.chr31              17970599   0 +  39895921 C
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=1061362.000000
s hg38.chr21_GL383579v2_alt      7655 108 +    201197 TATGGTCTCTTC-CTGTTGTTTTCAGTAATACCCTGATTCCTACCCTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAATTCTGTGACATCTGTCTGCCTCTCTATGTC
s panTro5.chr21               8631327 108 +  33445071 TATGATCTCTTC-CTGTTGTTTTCAGTAACACCCTGATTCCTACCCTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAATTCTGTGACATCTGTCTGCCTCTCTATGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166862 108 +  46275980 TATGATCTCTTC-CTGTTGTTTTCAGTAACACCCTGATTCCTACCCTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAATTCTGTGACATCTGTCTGCCTCTCTATGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148029 108 -  13858734 TATGGTCTCTTC-CTGTTGTTTTCAGGAATACCCTGATTCCTACCctttctctgtctggcttttcatttatttctctaattctatgacatctgtctgcctctctatgtc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193103 108 +  32716333 TATTGTCTCTTC-CTGTTGTTTTCAGGAGTACCCTGCTTCCTACCCTTTCTCTGTGTGGCTTTTCATTTATTTCTGTAATTCTGTGACATCTGTCTGCCTCTCTACGTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160593083 108 - 185818997 CATGGTCTCCTC-CTGTTGTTTTCAGGAGTACCCTGATTCCTACCTTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCTATGTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230051 108 - 192294377 CATGGTCTCCTC-CTGTTGTTTTCAGGAGTACCCTGATTCCTACCTTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCTATGTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854624 108 -  30496662 CATGGTCTCCTC-CTGTTGTTTTCAGGAGTACCCTGATTCCTACCTTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCTATGTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377639 108 +  21915920 CATGGTCTCCTC-CTGTTGTTTTCAGGAGTACCCTGATTCCTACCTTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAACTCTGTGACATCTGTCTGCCTCTCTATGTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879072 108 -  90373283 CATGGTCTCCTT-CTGTTGTTTTCAGGAGTACCCTGATTCCTACCTTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCTATGTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375620 108 +   7543664 CATGGTCTCCTC-CTGTTGTTTTCAGGAGTACTCTGATTCCTACCTTTTCTCTGTCTGGCTTTTCATTTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCCATGTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5144130 108 -  13750039 CATGGTCTCCTC-CTGTTGTTTTCAGGAGTACCCTGATTCCTACCTTTTCTCTGTCTAGGTTTTCATTTATTTCTGTAACTCTATGACGTCTGTCTGCCTCTCTATGTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425797 108 +  50472720 TATGGTCTCTTC-CTGTTGTTTTCAGGAGTACCATGTTTCCTGCCCTTTCTCTGTCTGGCCTTTCACCTATTTCTGTAACTCCCTAACATCTGTCTGCCTCTCTATGTC
i calJac3.chr21             C 0 I 1
s cebCap1.NW_016107322v1     13853874 108 -  14377064 TATGGTCTCTTC-CTGCTGTTTTCAGGACTACCGTGTTTCCTACCCTTTTTCTGTCTTGCCTTTCACCTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCTATGTC
i cebCap1.NW_016107322v1    C 0 I 1
s aotNan1.NW_018487195v1      9088339 108 -   9889416 TATGGTCTCTTC-CTGTTGTTTTCAGGAGTACCCTGTTTCCTACCCTTTCTCTGTCTGGCCTTTCACCTATTTCTGTAACTCTATGACATCTGTCTGCCTCTCTATGTC
i aotNan1.NW_018487195v1    C 0 I 22
s otoGar3.GL873528           24794745 106 -  38779656 TATGGGCTCCTTGCTGTTGTTTCCAGGAGTACTTTGCTTCCTGCTTTTTTTC---CTCCCTTTTTACCTATTTCCTCACTTCCATGACAACTGTCTGCCTCTTTGTGGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17970599  80 +  39895921 --------------TATGGTTTCCAGGAGTATGCTGATTTCTA---------------GCCCTTCATCTATTGTCTTATTTCTAAAACATCTGTCTGGCTCCTTATTGC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=82816.000000
s hg38.chr21_GL383579v2_alt      7763 15 +    201197 TTCTTTTTTTCTTTG
s panTro5.chr21               8631435 15 +  33445071 TTCTTTTTTTCTTTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166970 15 +  46275980 TTCTTTTTTTCTTTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148137 15 -  13858734 ttctttttttctttG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193211 15 +  32716333 TTCTTTTTATCGTTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160593191 15 - 185818997 TTCTTTTCTTCGTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230159 15 - 192294377 TTCTTTTCTTCGTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854732 15 -  30496662 TTCTTTTCTTCGTTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377747 15 +  21915920 TTCTTTTTTTCATTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879180 15 -  90373283 TTCTTTTTCTCGTTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375728 14 +   7543664 TTCTTTTT-TCGTTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5144238 15 -  13750039 TTCTTTTTTTCGTTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425906 15 +  50472720 TTGTTGTTGTTGTTA
i calJac3.chr21             I 1 C 0
s cebCap1.NW_016107322v1     13853983 15 -  14377064 TTGTTGTTGTTGTTA
i cebCap1.NW_016107322v1    I 1 C 0
s otoGar3.GL873528           24794851 12 -  38779656 ATCTTTATGTCA---
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17970679 15 +  39895921 TTCCTTTTCTGTCAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e aotNan1.NW_018487195v1      9088447 22 -   9889416 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=4275270.000000
s hg38.chr21_GL383579v2_alt      7778 420 +    201197 GAGAATTTGATGTTCTATGCCCCTTATATCAAAATGAATCCAGTCATGAACAGGGATCAAAGCAAGTCTTATTAAAGAGAAAACAATTGAGCTGGGACACAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGCTGTGTA------AATGAGTTCATCCTATCTCATGATGACAATTTGAATTTACACAGT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCATATTCTAGTTTAG-------------AATAAAC--------CCTCTCTTTTCAGTCGGGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAATCAAGTGTTTCAATCATTACCCCTCATCACGTCTACCACTATGTAAATCAA---CTCATCTCTTTACTTGCATAAGTTCTTTATATGCAAATTA--------TTATTTCATTCATT
s panTro5.chr21               8631450 420 +  33445071 GAGAATTTGATGTTCTATGCCCCTTATATCAAAATGAATCCAGTCATGAACAGGGATCAAAGCAAGTCTTATTAAAGAGAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGCTGTGTA------AATGAGTTCATCCTATCTCATGATGACAATTTGAATTTACACAGT-TTTTTAAACTCTGGCAGAAGA---TTGGATAATCATTTAAGTCAGATGGTCATATTCTAGTTTAG-------------AATAAAC--------CCTCTCTTTTCAGTCGGGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAATCAAGTGTTTCAATCATTACCCCTCATCACGTCTACCACTATGTAAATCAA---CTCATCTCTTTACTTGCATAAGTTCTTTATATGCAAATTA--------TTATTTCATTCATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22166985 420 +  46275980 GAGAATTTGATGTTCTATGCCCCTTATATCAAAATGAATCCAGTCATGAACAGGGATCAAAGCAAGTCTTATTAAAGAGAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGCTGTGTA------AATGAGTTCATCCTATCTCATGATGACAATTTGAATTTACACAGT-TTTTTAAACTCTGGCAGAAGA---TTGGATAATCATTTAAGTCAGATGGTCATATTCTAGTTTAG-------------AATAAAC--------CCTCTCTTTTCAGTCGGGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAATCAAGTGTTTCAATCATTACCCCTCATCACGTCTACCACTATGTAAATCAA---CTCATCTCTTTACTTGCATAAGTTCTTTATATGCAAATTA--------TTATTTCATTCATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148152 432 -  13858734 GATAATTTGATGTTCTATACCCCTTATATCAAAATGAATCCAGTCATGAACAGGGATCAAAGCAAGTCTTATTAAAGAGAAAACAATTGAGCTGGGACACAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGCTGTGTA------AATGAGTTCATCCTATCTCCCGATGACAATTTGAATTTACACAGT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCATATTCTAGTTTAGACACCTAGATAAAAATAAAC--------CCTCTCTTTTCAGTCGGGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAATCAAGTGCTTCAATCATTA-CCCTCATCACGTCTACCACTATGTAAATCAA---CTCATCTCTTTACTTGCATAAGTTCTTTATATGCAAATTA--------TTATTTCATTCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193226 433 +  32716333 GATAATTTGATGTTCTATGCCCCTTATATCAAAATGAATCCAGTCATGAACAGGGATCAAAGCAAGTCTTATTAAAGAGAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGCTGTGTA------AATGACTTCATCCTATCTCATGATGACAATTTGAATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCATATTCTAGTTTGGACACCTAGGTGAAAATAAAC--------CCTCTCTTTTCAGTTGGGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAATCAAGTGTTTCGATCATTACCACTCATCACGTCTACCACTATGTAAATCAA---CTCATCTCTTTACTTGCATAAGTTCTTTGTACGCAAATTA--------TTATTTCATTCATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160593206 449 - 185818997 GATAATTTGACGTTCTATATCCCCTATATCAAAATGAATCCAGTCATGAACAGGGATGAAAACAAATCTTATTAAAGAAAAAACAATCGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGATGTATA------AATTACTTCATCCTATCTCATGATGACACTTTGGATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTAGACACCTGGGTAAAAATAAACCCTCTAAGCCTCTCTTTTCAGTCAAATAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCACTCATCACATCTACCACTATGTAAATCTA---CTCATCTCTTCACTTGTATAAGTTCCTTATACGCAAATTGATTTGTATTTATTTCATTCATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230174 449 - 192294377 GATAATTTGACGTTCTATATCCCCTATATCAAAATGAATCCAGTCATGAACAGGGATGAAAACAAATCTTATTAAAGAAAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGATGTATA------AATTACTTCATCCTATCTCATGATGACACTTTGGATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTAGACACCTGGGTAAAAATAAACCCTCTAAGCCTCTCTTTTCAGTCAAATAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCACTCATCACATCTACCACTATGTAAATCTA---CTCATCTCATCACTTGCATAAGTTCCTTATACGCAAATTGATTTGTATTTATTTCATTCATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4854747 449 -  30496662 GATAATTTGACGTTCTATATCCCCTATATCAAAATGAATCCAGTCATGAACAGGGATGAAAACAAATCTTATTAAAGAAAAAACAATTGAGCTGGGACATAAAGATTCAATAAAATTTTAGCTTACAAATATCATGATGTATA------AATTACTTCATCCTATCTCATGATGACACTTTGGATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTAGACACCTGGGTAAAAATAAACCCTCTAAGCCTCTCTTTTCAGTCAAATAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCACTCATCACATCTACCACTATGTAAATCTA---CTCATCTCTTCACTTGCATAAGTTCCTTATACGCAAATTGATTTGTATTTATTTCATTCATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13377762 449 +  21915920 GATAATTTGATGTTCTATACCCCCTATATCAAAATGAATCCAGTCATGAACAGGGATCAAAACAAATCTTATTAAAGAAAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGATGTATA------AATTACTTCATCCTATCTCATGATGACACTTTGGATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTGGACACGTGGGTAAAAATAAACCCTCTAACCCTCTCTTTTCAGTCGAGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCACTCATCACATCTACCACTATGTAAATCTA---CTCATCTCTTCACTTGCATAAGTTCCTTATACGCAAATTGATTTGTATTTATTTCATTCATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879195 449 -  90373283 GATAATTTGACGTTCTATACCCCCTATATCAAAATGAATCCAGTCATGAACAGGGATGAAAACAAATCTTATTAAAGAAAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATATCATGATGTATA------AATTACTTCATCCTATCTCATGATGACAATTTGGATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TGAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTAGACACCTGGGTAAAAATAAACCCTCTAACCCTCTCTTTTCAGTCAAGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCACTCATCACGTCTACCACTATGTAAATCTA---CTCATCTCTTCACTTGCATAAGTTCCTTATATGCAAATTGATTTGTATTTATTTCATTCATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3375742 449 +   7543664 GATAATTTGACGTTCTATACCCCCTATATCAAAATGAATCCAGTCATGAACAGGGATGAAAACAAATCTTACTAAAGAAAAAACAATTGAGCTGGGACATAAAGACTGAATAAAATTTTAGCTTGCAAATATCATGATGTATA------AATTACTTCATCCTATCTCATGATGACAATTTGGATTTACACAAT-TTTTTAAACTCTGGCAGAAGA---TTAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTAGACACCTGGGTAAAAATAAACCCTCTAACCCTCTCTTTTCAGTCAAGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCACTCATCACATCTACCACTATGTAAATCTA---CTCATTTCTTCACTTGCCTAAGTTCCTTATACGCAAATTGATTTGTATTTATTTCATTCGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5144253 449 -  13750039 GATAATTTGATGTTCTATACTCCCTATATCAAAATAAATCCAGTCCTGAACAGGGATCAAAACAAATCTTATTAAAGAAAAAACAATTGAGCTGGGACATAAAGATTGAATAAAATTTTAGCTTGCAAATGTCATGATGTATA------AATTACTTCATCCTATCTCATGATGACAATTTGGATTTACACAAT-TTTTTAAACTCTGGCAAAAGA---TTAGATAATCATTTAAGTCAGATGGTCAGATTCTAGTTTAGACACCTGGGTAAAAATAAACACTGTAACCCTCTCTTTTCAGTCAAGTAAGTTAGACTT-AAAATGTCAGAATGTATTTTGTTCCTAGTCAAGTGCTTCAATCATTACCATTCATCACGTCTACCACTATGTAAATCTA---CTCATCTCTTCACTTGCATAAGTTCTTGATATGCAAATTGATTTGTATTTATTTCATTCATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26425921 440 +  50472720 GATAATTTGTTGTTCAATGCCCCTTATATCAAAATGAATCCAATCATGAACAGGAAACAAAGCAAGTCTAATTAAAGAGAAAACAATTGAGCTGGGACATAAGGATTGAATACAATTTTAACTTGCAACTATCTGGATGTATATGACTTCATGACTTCAACTTGTCTCATGATGACAATTTGAATTTACACAAT-TTTTTAAACTCTGGC---AGA---TTAGATAATTGTTTAAGTCAGATGGTTATATCCTAGCTTAAACACCTAGGTGAAAATAAAC--------CCTCTCTTTTCAGTCGAGTAAATTAGACTT-AAAATGTCAGAATATATTTTGCTCCTAATCAAGTGTTTCAATCATTACCACTCATCACACCTGCCACTATGAAAATCAG---CTCATCTCTTTACTTGCATAAGTTCCTTATGCACAAATCGATTT----TTGTTTCATTCATT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13853998 433 -  14377064 GATAATTTGTTGTTCTATTTCCCTTATATCAAAATGAATCCAGTCATGAACAGGGAACAAAGCAAGTCTTATTAAAGAGAAAATAATTGGGCTGGGACATAAGGATTGACTACAATTTTAACTTGCAAATATCTAGACGTATA------CATGACTTCAACTTGTCTCATGATGGCAATTTGAATTTACACAAT-TTTTTAAACTCTGGC---AGA---TTAGATAATTGTTTAAGTCAGAGGGTTATATTCTAGCTTAAACACCTAGGTGAAAATAAAC--------CCTCTCTTTTCAGTCGAGTAAATTAGACTT-AAAATGTCAGAATATGTTTTGCTCCTAATCAAGTGTTTCAATCATTACCACTCATCACACCTGCCACTATGAAAATCAG---CTCATCTC-TTACTTGCATAAGTTCCTTATACACAAATTGATTT----TTATTTCATTCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9088469 433 -   9889416 gataatttgttgttCTATGCCCCTTATATCAAAATGAATCCAGTCATGAACAGGGAACAAAGCAAGTCTTGTTAAAGAGAAAACAATTGAGCTGGGACATAAGGATTGAATACAATTTTAACTTGCAAATATCTGGACATATA------CATGACTTCAACTTGTCTCATGATGACAATTTGAATTTACACAAT-TTTTTAAACTCTGGC---AGA---TTAGATAATTGTTTAAGTCAGATGGTTATATCCTAGCTTAAACACCTAGGTGAAAATAAAC--------CCTC-CTTTTCAGTCGAGTGAATTACACTT-AAAATGTCAGAATATATTTTGCTCCTAATCAAGTGTTTCAGTCATTACCACTCATCACACTTGCCACTATGAAAATCAT---CTCATCTCTTTACTTGCATAAGTTCCTTATACACAAATCGATTT----TTGTTTCATTCATT
i aotNan1.NW_018487195v1    I 22 C 0
s otoGar3.GL873528           24794863 433 -  38779656 GACAATTTGATGTTATATGTCCCTTATCTCAAAAGGAATGTCCTCATAAACAGAGATCAAAGTAATTCTCATTACAGAAGAACTATTTGAGCTGCAACATAAAGGGTGAATAAAATTTTAACATATAAATA-CGTGGTATATA------AATGACTTCATCCTGTCTCATGATGACAGCTTGAGTGTACA-ATT-TTTTTAAACTCCGACAGAAAA---TTAGATAATCATTGAAGTCAGATGGTCATATCCTAGTTTAGATACCTACGTGAGAGTAAAC--------CCTTTCTTCTCAATAGACTAAATCAGACAT-AAAACGTTAGAATACATTTTGCCCTTAATCAAGTGTCTCAATCATCTCCCCTCATTACATCTTCCACGACGCAAATGAA---CTCATCTGCTTGCTTGCATAAGTTCCTTTTACACAGATCTTTTT----TTGTT--GTTCACT
i otoGar3.GL873528          C 0 I 12
s canFam3.chr31              17970694 442 +  39895921 -GTAATGTGACATTCTATACTTCTTATATGAAAGTTAACCCAATCATGAACAGAGATTAATGAAGATCTCATTAAAAAGGAACAATTTGAGCTGAGATAGAAAGGTTGAATAGAATTTTAACATGCAAATATGTTATTATATA------AATGACTTCATCCTATCTCATGACAACAACTTGAATTTGCATATTATTTTTTAACTCTGGCAGAAGAAGTTTAGAAAATCATTTAAGTCAGATGGCCATATCCTAGTTTAGATACCCAGGTGATAATTAAC--------CCTCTCTTCTGGATCCAGTAAATCAGACTTAAAAATGTCAGAATACATTTTGCTTCTAATTAAGTGTTTCAATCATCCTTGCTCATCACATCTACCACAATGCAAATGAACTTCTCATCACTTTGCTTGCAAAAACTTCTTGCACACAACTCTCCTT----TTTTTTTTTTTT--
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e saiBol1.JH378168            8632066 150 +  13128814 I

a score=2724047.000000
s hg38.chr21_GL383579v2_alt      8198 269 +    201197 AAAAAGTTACTTTCACTTATTCT---CTGTGTACAATAGTTTGCACTGTAACCCATGTTGAT-C-TACCCTTATTTCTGCAAATACTATATGCATGTATTTCTCTTTCAGACACTCGGCCCTGATGCTTTTTTTGT-GAGGG-----CTTTTCCTTTTTCCTCTTGGATTTCCACTAAAAGTAGTTGTAACATTGACTGTGTTCTTATTCCTCTGTGCCA-TTCCACATCATCAATCCGTGTTTCTCTTTCCTTATTAATA-TTTAAACTTCATATCCTGTG
s panTro5.chr21               8631870 269 +  33445071 AAAAAGCTACTTTCACTTATTCT---CTGCATAGAATAGTTTGCACTGTAACCCATGTTGAT-C-TACCCTTATTTCTGCAAATATTATATACATGTATTTCTCTTTCAGACACTCGGCCCTGATGCTTTTTTTGT-GAGGG-----CTTTTCCTTTTTCCTCTTGGATTTCCACTAAAAGTAGTTGTAACATTGACTGTGTTCTTATTCCTCTGTGCCA-TTCCACATCATCAATCCATGTTTCTCTTTCCTTATTAATA-TTTAAACTTCATATCCTGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167405 269 +  46275980 AAAAAGTTACTTTCATTTATTCT---CTGCATAGAATAGTTTGCACTGTAACCCATGTTGAT-C-TACCCTTATTTCTGCAAATATTATATACATGTATTTCTCTTTCAGACACTCGGCCCTGATGCTTTTTTTGT-GAGGG-----CTTTTCCTTTTTCCTCTTGGATTTCCACTAAAAGTAGTTGTAACATTGACTGTGTTCTTATTCCTCTGTGCCA-TTCCACATCATCAATCCATGTTTCTCTTTCCTTATTAATA-TTTAAACTTCATATCCTGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148584 269 -  13858734 AAAAAGTTACTTTCACTTATTCT---CTGCGTAGAATAGTTTGCACTGTAACCCATGTTGAT-C-TACCCTTATTTCTGCAAATATTATATGCATGTATTTCTCTTTCAGACACTCGGCCCTGATGCTTTTTTTGT-GAGGG-----CTTTTCCTTTTTCCTCTTGGATTTCCACTAAAAGTAGTTGTAACATTGACTGTGTTCTTATTCATCTGTGCCA-TTCCACATCATCAATCCATGTTTCTCTTTCCTTATTAATA-TTTAAACTTCATATCCTGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193659 269 +  32716333 AAAAAGTTACTTTCACTCATTCT---CTGCGTAGAATAGTTTGCACTGTAACCCATACTGAT-C-TACCCTTATTTCTGCAGATATTATACGCATGTATTTCTCTTTCAGACACTTGGCCCTGATGCTTTTTTTGT-GAGGG-----CTTTTCCTTTTTCCTCTTGGATTTCCACTAAAAGTAGTTATAACATTGACTGTGTTCTTATTCCTCTGTGCCA-TTCCAGATGATCAATCCATGATTCTCTTTCCTTATTAATA-TTTAAACTTCATATCTTGTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160593655 267 - 185818997 AAAAAGTTACTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACCGTTATTTCTGCAAATATTATATGCAGGCATTTCTCTTTCAGACACTCGGCCCTGATGCTTTCTTTGT-GGGGG------TTTTCCTTTTTCCTCTTGGATTTTCACTAAAAGTAGTTATAATATAGGCTGTGTTCTTATTTGTCTGTGCCACTTCCAGATCATCAATCCATGAT--TCTTTCTTTATTAATA-TGTATACTTCATATCTTGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230623 267 - 192294377 AAAAAGTTACTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACCGTTATTTCTGCAAATATTATATGCAGGCATTTCTCTTTCAGACACTCGGCCCTGATGCTTTCTTTGT-GGGGG------TTTTCCTTTTTCCTCTTGGATTTTCACTAAAAGTAGTTATAATATAGGCTGTGTTCTTATTTGTCTGTGCCACTTCCAGATCATCAATCCATGAT--TCTTTCTTTATTAATA-TGTATACTTCATATCTTGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855196 267 -  30496662 AAAAAGTTACTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACCGTTATTTCTGCAAATATTATATGCAGGCATTTCTCTTTCAGACACTCGGCCCTGATGCTTTCTTTGT-GGGGG------TTTTCCTTTTTCCTCTTGGATTTTCACTAAAAGTGGTTATAATATTGGCTGTGTTCTTATTTGTCTGTGCCACTTCCAGATCATCAATCCATGAT--TCTTTCTTTATTAATA-TGTATACTTCATATCTTGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13378211 259 +  21915920 AAAAAGTTACTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACCGTTATTTCTGCAAATATTATATGCGTGCATTTCTCTTTCACATGCTCGGCCCTGATGCTTTCTTTGT-GGGGG------TTTT--------CTCTTGGATTTTCACTAAAAGGAGTTATAATATTGGCTGTGTTCTTACTTGTCTGTGCCACTTCTAGATCATCAATCCATGAT--TCTTTCTTTATTAATA-TTTATACTTCATATCTGGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879644 267 -  90373283 AAAAAGTTATTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACCGTTATTTCTGCAAATATTATATGCATGCATTTCTCTTTCAGACACTCGGCCCTGATGCTTTCTTTGT-GGGGG------TTCTCCTTTTTCCTCTTGGATTTTCACTAAAAGTAGTTATAATATTGACTGTGTTCTTATTTGTCTGTGCCACTTCCAGATCATCAATCCATGAT--TCTTTCTTTATTAATA-TTTATATTTCATATCTTGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3376191 267 +   7543664 AAAAAGCTACTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACCATTATTTCTGCAAATATTATATGCATGTATTTCTCTTTCAGACACTCGGCCCTGATGCTTTCTTTGT-GGGGG------TTTTCCTTTTTCCTCTTGGATTTTCACTAAAAGTAGTTATAATATTGGCTGTGTTCTTATTTGTCTGTGCCACTTCCAGATCATCAATCTATGAT--TCTTTCTTTATTAATA-TTTATACTTCATATCTTGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5144702 268 -  13750039 AAAAAGTTACTTTCACTCATTTT---CTGCCTAGAATAATTTGCACTATAACCCATGTTGAT-C-TACTGTTATTTCTGCAAATATTATATGCATGCATTTCTCTTTCAGACACTCGGCCCTGATGCTTTCTTTGT-GGGGG-----CTTTTCCTTTTTCCTCTTGGATTTTCACTAAAAGTAGTAATAATATTGGCTGTGTTCTTATTTGTCTGTGCCACTTCCAGATCTTCAATCCATGAT--TCTTTCTTTATTAATA-TTTAAACTTCATATCTTGTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26426361 270 +  50472720 AAAAAGTTACTTTCACTCATTCT---CTGCCAAGAATAGTTTGCATTATAACACTTGTTGAT-G-TACTCTTATTTCTGCAAATATTATAAGCACGTAATTCTCTTTCAGACACTCGACCCTGATGCTTTCTTTGT-GGGGG-----CTTCCTTTCTATCCTCTGTGATTTTGATTAAAAGTAGTTACAATATTAACTGTCTTCTTATTCCCCTGTGTCACTTCCAGATAATTGATCCATGATTCTCTTTTCTTATTAATA-TTTAAATTTCATATCTTGTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632216 270 +  13128814 aaaaaGTTACTTTCACTCATTCT---CTGTCAAGAATAGTTTACATTATAACACTTGTTGAT-G-CACCCTTATTTCTGTAAATATTATATGCCCATAATTCTCTTTCAGACACTCGACCCTGATGCTTTCTTTGT-GGGGG-----CTTCCTCTCTATCCTCTGTGATTTTCATTAAAAGTAGTTATAATATGAACTGTCTTCTTATTCCCCTGTGCCACTTCCAGATAATTGATCCATGATTCTCTTTCCTTATTAATA-TTTAAACTTCATATATTGTG
i saiBol1.JH378168          I 150 C 0
s cebCap1.NW_016107322v1     13854431 271 -  14377064 AAAAAGTTACTTTCACTCATTCT---CTGCCAAGAATGGTTTGCATTATAACACTTGTTGAT-G-TACCCTTATTTCTGCAAATATTATATGCACATAATTCTCTTTCAGACACTCGACCCCGATGCTTTCTTTGTGGGGGG-----CTTCCTCTCTATCCTCTGTGATTTTTATTAAAAGTAGTTATAATATGAACTGTCTTCTTATTCCCCTGTGCCACTTCCAGATAATTGATCCATGATTCCCTTTCCTTATTAATA-TTTAAACTTCATATCTTGTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9088902 270 -   9889416 AAAAAGTTACTTTCACTCATTCT---CTGCCAAGAATAGTTTGCATTATAACACTTGTTGAT-G-TACCCTTATTTCTGCAAATATTATATGCACGTAATTCTCTTTCAGACACTCGACCCTGATGCTTTCTTGGT-GGGGG-----CTTCCTCTCTATCCTCTGTGATTTTCATTAAAAGTAGTTATAATATTAACTGTCTTCTTATTCCCCTGTGCCACTTCCAGATAATTGATCCATGATTCTCTTTCCTTATTAATA-TTTAAACTTCATATCTTGTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24795308 270 -  38779656 AAAATTTTCCTCTTGCTTCCTTTACCTTGCCTTGAATTGTTTGTCCGACAGCCCATTGTGAT-CATATTCTTAATTCAGCAAATGTTGTGTGCATGTTATTTCTCTTTAGACACTCTA-CCTGATGCTTTCATTGT-GGGAG-----CTTTTTCTCTACCCTCTCAGACTT-CAAGGAAAGTGGTTTTAATATTGATTGCATTCTTATTCCCAAG-GCCATTTCCAGATCATTGATCTATGATGGTTTTTCCTTA-AAAAA-TCTCAATTTTATAGCTTGTG
i otoGar3.GL873528          I 12 I 1
s canFam3.chr31              17971136 276 +  39895921 TAACAATTACTCTCACCCCTTTT---CTTCTACCTATAA-TTGTATCGTAATCCATGGTGATAC-TGCTCTTATTTTAGCAAAGTCTGTATACATGTACTTCTCTTTCAAACATTATACCCTGATGCGTCTATTGA-AGGGAGTGGCCTTCTTCTCATTTTTCTCAGACTTTCAATGATAGTAATTGTGGTATTGACTGTGTCTTTATCTGCTAGGGTCGCTCCCAGATCCCTGATCCATGATTCTCTTCACTTACAAACATTTTGAACTCCAGACCTTGTA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I

a score=730.000000
s hg38.chr21_GL383579v2_alt      8467 2 +    201197 TC
s panTro5.chr21               8632139 2 +  33445071 TC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167674 2 +  46275980 TC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148853 2 -  13858734 TC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193928 2 +  32716333 TC
i nomLeu3.chr25             C 0 C 0
s manLeu1.NW_012103476v1      3376458 2 +   7543664 TC
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26426631 2 +  50472720 TA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632486 2 +  13128814 TA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13854702 2 -  14377064 TA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089172 2 -   9889416 TA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24795579 1 -  38779656 T-
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              17971412 2 +  39895921 TC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cerAty1.NW_012002954v1     13378470 0 +  21915920 C
e macNem1.NW_012015021v1      4855463 0 -  30496662 C
e macFas5.chr3              167230890 0 - 192294377 C
e rheMac8.chr3              160593922 0 - 185818997 C
e colAng1.NW_012120598v1      5144970 0 -  13750039 C
e chlSab2.chr2               19879911 0 -  90373283 C

a score=3276.000000
s hg38.chr21_GL383579v2_alt      8469 1 +    201197 T
s panTro5.chr21               8632141 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167676 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148855 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193930 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13378470 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3376460 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s otoGar3.GL873528           24795580 1 -  38779656 T
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17971414 1 +  39895921 T
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4855463 0 -  30496662 C
e macFas5.chr3              167230890 0 - 192294377 C
e rheMac8.chr3              160593922 0 - 185818997 C
e cebCap1.NW_016107322v1     13854704 0 -  14377064 C
e aotNan1.NW_018487195v1      9089174 0 -   9889416 C
e calJac3.chr21              26426633 0 +  50472720 C
e saiBol1.JH378168            8632488 0 +  13128814 C
e colAng1.NW_012120598v1      5144970 0 -  13750039 C
e chlSab2.chr2               19879911 0 -  90373283 C

a score=-1667.000000
s hg38.chr21_GL383579v2_alt      8470 11 +    201197 CTCACCC------------------------------tttt
s panTro5.chr21               8632142  9 +  33445071 CTCACCC--------------------------------tt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167677  7 +  46275980 CTCACCC----------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148856 14 -  13858734 CTCACCC---------------------------ttttttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193931  7 +  32716333 CACACCC----------------------------------
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13378471 41 +  21915920 CTCACCCttttattttattttgttttaatttattttttatt
i cerAty1.NW_012002954v1    C 0 C 0
s canFam3.chr31              17971415 11 +  39895921 CTCAACA------------------------------TTTT
i canFam3.chr31             C 0 I 28
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4855463  0 -  30496662 C
e macFas5.chr3              167230890  0 - 192294377 C
e rheMac8.chr3              160593922  0 - 185818997 C
e cebCap1.NW_016107322v1     13854704  0 -  14377064 C
e aotNan1.NW_018487195v1      9089174  0 -   9889416 C
e calJac3.chr21              26426633  0 +  50472720 C
e saiBol1.JH378168            8632488  0 +  13128814 C
e otoGar3.GL873528           24795581  0 -  38779656 C
e colAng1.NW_012120598v1      5144970  0 -  13750039 C
e manLeu1.NW_012103476v1      3376461  0 +   7543664 C
e chlSab2.chr2               19879911  0 -  90373283 C

a score=201888.000000
s hg38.chr21_GL383579v2_alt      8481 176 +    201197 tttttttttttttttttgagacagagtttcgctctgtcacccaggctggagtgcagtggcgtgatctcggctcactgcaagctccgcctcccgggttcatgccattctcctgcctcagcctcccgagtagctgggactacaggtgcccgccaccacgccaagctaattttttgta-t
s panTro5.chr21               8632151 176 +  33445071 tttttttttttttttttgagacagagtttcgctctgtcgcccaggctggagtgcagtggcgtgatctcggctcactgcaagctccacctcccgggttcatgccattctcctgcctcagcctcccgagtagctgggactacaggtgcccgccaccacgcccagctaattttttata-t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167684 172 +  46275980 ----tttttttttttttgagacagagtttcgctctgtcgcccaggctggagtgcagtggcatgatctcagctcactgcaagctccacctcccgggttcatgccattctcctgcctcagcctcccgagtagctgggactacaggtgcccgccaccacgcccagctaattttttata-t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8148870 176 -  13858734 tttttttttttttttttgagacagagtttcgctctgtcacccaggctggagtgcagtggcgtgatctcggctcactacaagctccgcctcccgggttgatgccattctcctgcctcagcctcccgagtagctgggactacaggtgcctgccaccacgcccagctaattttttgta-t
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9193938 171 +  32716333 -----ttttttttttttgagacagagttttgctctgtagcccaggctggagtgcagtggcacgatctcggctcactgcaagctccacctcccgggttcatgccattctcctgcctcagcctcccaagtagctgggactacaggtgcctgccaccaagcccagctaatcttttgta-t
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13378512 177 +  21915920 ttattttatttttttatgagacagagtctcgctctgtcgcccaggctggagtgcagtggcgctatctcctctcactgcaagctccgcctcccgggttcacgccattctcctgcctcagcctccccagtagctgggactacaggcgcccgccacctcgcccggctagttttttgtatt
i cerAty1.NW_012002954v1    C 0 C 0
s otoGar3.GL873528           24795581  40 -  38779656 ----CTCTCTCTTTT--------------------------------------CAGTGAT-----------------CAAGCT-------------------------------------------------------------GCCTATCACC----------------TTGTA-T
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4855463   0 -  30496662 C
e macFas5.chr3              167230890   0 - 192294377 C
e rheMac8.chr3              160593922   0 - 185818997 C
e cebCap1.NW_016107322v1     13854704   0 -  14377064 C
e canFam3.chr31              17971426  28 +  39895921 I
e aotNan1.NW_018487195v1      9089174   0 -   9889416 C
e calJac3.chr21              26426633   0 +  50472720 C
e saiBol1.JH378168            8632488   0 +  13128814 C
e colAng1.NW_012120598v1      5144970   0 -  13750039 C
e manLeu1.NW_012103476v1      3376461   0 +   7543664 C
e chlSab2.chr2               19879911   0 -  90373283 C

a score=144000.000000
s hg38.chr21_GL383579v2_alt      8657 111 +    201197 atttagtagagat-gggtttcaccatgttggccaggatggtctcgatctctttacctcgtgattcacccgcctcggcctcccaaagtgctgggattacaggcgtgagccacc
s panTro5.chr21               8632327 111 +  33445071 atttagtagagac-gggtttcaccatgttggccaggatggtctcgatctctttacctcgtgattcacccgcctcggcctcccaaagtgctgggattacaggcgtgagccacc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167856 111 +  46275980 atttagtagagac-gggtttcaccatgttggccaggatggtctcgatctctttacctcgtgattcacccgcctcggcctcccaaagtgctgggattacaggcgtgagccacc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149046 111 -  13858734 atttagtagagac-gggtttcatcctgttggccaggatggtctcgatctctttacctcgtgattcacccgcctcggcctcccaaagtgctgggattacaggcgtgagccacc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194109 112 +  32716333 ctttagtagagacagggtttcaccatgttggccaggatggtctcgatctctttacctcgtgattcacccacctcggcctcccaaagtgctgggattacaggcgtgagccacc
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13378689 112 +  21915920 ttttagtagagacggggtttcactgtgttagccaggatggtctcgatctcctgacctcgtgatccacccatcttggccttccaaagtgctgggattacaggcttgagccacc
i cerAty1.NW_012002954v1    C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4855463   0 -  30496662 C
e macFas5.chr3              167230890   0 - 192294377 C
e rheMac8.chr3              160593922   0 - 185818997 C
e cebCap1.NW_016107322v1     13854704   0 -  14377064 C
e canFam3.chr31              17971426  28 +  39895921 I
e aotNan1.NW_018487195v1      9089174   0 -   9889416 C
e calJac3.chr21              26426633   0 +  50472720 C
e saiBol1.JH378168            8632488   0 +  13128814 C
e otoGar3.GL873528           24795621   0 -  38779656 C
e colAng1.NW_012120598v1      5144970   0 -  13750039 C
e manLeu1.NW_012103476v1      3376461   0 +   7543664 C
e chlSab2.chr2               19879911   0 -  90373283 C

a score=7892.000000
s hg38.chr21_GL383579v2_alt      8768 13 +    201197 acgccccgccATC
s panTro5.chr21               8632438 13 +  33445071 acgccctgccATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167967 13 +  46275980 atgccctgccATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149157 12 -  13858734 ac-ccccACCATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194221 13 +  32716333 gtgccccgccGTC
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13378801 13 +  21915920 gcgcccggccTGG
i cerAty1.NW_012002954v1    C 0 I 2
s canFam3.chr31              17971454 13 +  39895921 ACAActctctctc
i canFam3.chr31             I 28 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4855463  0 -  30496662 C
e macFas5.chr3              167230890  0 - 192294377 C
e rheMac8.chr3              160593922  0 - 185818997 C
e cebCap1.NW_016107322v1     13854704  0 -  14377064 C
e aotNan1.NW_018487195v1      9089174  0 -   9889416 C
e calJac3.chr21              26426633  0 +  50472720 C
e saiBol1.JH378168            8632488  0 +  13128814 C
e otoGar3.GL873528           24795621  0 -  38779656 C
e colAng1.NW_012120598v1      5144970  0 -  13750039 C
e manLeu1.NW_012103476v1      3376461  0 +   7543664 C
e chlSab2.chr2               19879911  0 -  90373283 C

a score=33840.000000
s hg38.chr21_GL383579v2_alt      8781 3 +    201197 TCT
s panTro5.chr21               8632451 3 +  33445071 TCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167980 3 +  46275980 TCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149169 3 -  13858734 TCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194234 3 +  32716333 TCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160593922 3 - 185818997 TCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230890 3 - 192294377 TCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855463 3 -  30496662 TCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13378816 3 +  21915920 TCT
i cerAty1.NW_012002954v1    I 2 C 0
s chlSab2.chr2               19879911 3 -  90373283 TCT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5144970 3 -  13750039 TCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26426633 3 +  50472720 TCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632488 3 +  13128814 TCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13854704 3 -  14377064 TCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089174 3 -   9889416 TCT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17971467 3 +  39895921 tct
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e otoGar3.GL873528           24795621 0 -  38779656 C
e manLeu1.NW_012103476v1      3376461 0 +   7543664 C

a score=347474.000000
s hg38.chr21_GL383579v2_alt      8784 42 +    201197 CACCCTTTTTAATTATCGTAGCCATCTACTATTGTCTTGTAT
s panTro5.chr21               8632454 42 +  33445071 CACCCTTTTTAATTATCGTAGCCATCTACTATTGTCTTGTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22167983 42 +  46275980 CACCCTTTTTAATTATCGTAGCCATCTACTATTGTCTTGTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149172 42 -  13858734 TACCCTTTTTAATTATCGTAGCCATCTACTATTGTCTTGTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194237 39 +  32716333 CACCCTTTTTAATTATCCTAGCCAT---CTATTGTCTTGTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160593925 39 - 185818997 CACCCTTTTAAATTACCTTAGCCAT---CTATTGTCTTGTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230893 39 - 192294377 CACCCTTTTAAATTACCTTAGCCAT---CTATTGTCTTGTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855466 39 -  30496662 CACCCTTTTAAATTACCTTAGCCAT---CTATTGTCTTGTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13378819 39 +  21915920 CACCCTTTTAAATTACCTTAGCCAT---CTATTGTCTTGTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879914 39 -  90373283 CACCCTTTTAAATTACCTTAGCCAT---CTATTGTCTTGTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3376461 39 +   7543664 CACCCTTTTAAATTACCTTAGCCAT---CTATTGTCTTGTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5144973 39 -  13750039 CACCCTTTTAAATTATCTTAGCCAT---CTATTGTCCTGTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26426636 39 +  50472720 CACCCTTTTTAATTATCCTAGTCAT---CTATTATCTTGTAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632491 39 +  13128814 CACCCTTTTTAATTATCCTAGTCAT---CTATTGTCTTGTAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13854707 39 -  14377064 CACCCTTTTAAATTATCTTAGTCAT---CCATTGTCTTGTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089177 39 -   9889416 CACCCTTTTTAATTATCCTAGTCAT---CTACTGTCTTGTAT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17971470 13 +  39895921 ctctctctctcAT-----------------------------
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e otoGar3.GL873528           24795621  0 -  38779656 C

a score=274531.000000
s hg38.chr21_GL383579v2_alt      8826 25 +    201197 GACCCTGTCAAGATGTATACATAGA
s panTro5.chr21               8632496 25 +  33445071 GACCCTGTCAAGATGTATACATAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22168025 25 +  46275980 GACCCTGTCAAGATGTATACATAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149214 25 -  13858734 GACCCTGTCAAGATGTATACATAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194276 25 +  32716333 GACCCTCTCAAGATGTATACATAGA
i nomLeu3.chr25             C 0 M 100
s rheMac8.chr3              160593964 25 - 185818997 GACCCTGTCAAGATGTATACATAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230932 25 - 192294377 GACCCTGTCAAGATGTATACATAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855505 25 -  30496662 GACCCTGTCAAGATGTATACATAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13378858 25 +  21915920 GACCCTGTCAAGATGTATACATGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879953 25 -  90373283 GACCCTGTCAAGACGGATACATAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3376500 25 +   7543664 GACCCTGTCAAGATGTATACATAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5145012 25 -  13750039 GACCCTGTCAAGATGTATACATAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26426675 25 +  50472720 GACCCTGTCAAGGTATATAAATAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632530 25 +  13128814 GACCCTGTCAAGGCATATATATAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13854746 25 -  14377064 GACCCTGTCAGGGTATATATATAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089216 25 -   9889416 GACCCTGCCAAGGTATATATATAAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24795621 25 -  38779656 GACCCTGTCAAAATGTATATATGGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17971483 13 +  39895921 ------------ATATATATATGAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I

a score=1361308.000000
s hg38.chr21_GL383579v2_alt      8851 146 +    201197 GATGTATAAGCTTT-TTCTTTACAT-GATCCTGGAAATCATCTTCGGTGATGTTAACATCTATATCAAGGATTCTTCTGAGTCTTTGATTATAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTCCCTTCTAGATCATCAT
s panTro5.chr21               8632521 146 +  33445071 GATGTATAAGCTTT-TTCTTTACAT-GATCCTGGAAATCATCTTCGGTGATGTTAACATCTATATCGAGGATTCTTCTGAGTCTTTGATTATAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTCCCTTCTAGATCATCAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22168050 146 +  46275980 GATGTATAAGCTTT-TTCTTTACAT-GATCCTGGAAATCATCTTCGGTGATGTTAACATCTATATCAAGGATTCTTCTGAGTCTTTGATTATAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTCCCTTCTAGATCATCAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149239 146 -  13858734 GATGTATAAGCTTT-TTCTTTACAT-GATCCTGGAAATCATCTTCGGTGATGTTAACATCTATATGGAGGATTCTTCTGAGTCTTTGATTATAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTCCCTTCTAGATCATCAT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160593989 146 - 185818997 GATGTATAAGCTTT-TTCTTTACAT-GACCCTGGAAATCATCTTCAGTGATGTTAACATCTATATCGAGGATTCTTCTAAGTCTTTGATTTTAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCCTCCTTCTAGATCATCAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167230957 146 - 192294377 GATGTATAAGCTTT-TTCTTTACAC-GACCCTGGAAATCATCTTCAGTGATGTTAACATCTATATCGAGGATTCTTCTAAGTCTTTGATTTTAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCCTCCTTCTAGATCATCAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855530 146 -  30496662 GATGTATAAGCTTT-TTCTTTACAC-AACCCTGGAAATCATCTTCAGTGATGTTAACATCTATATCGAGGATTCTTCTAAGTCTTTGATTTTAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCCTCCTTCTAGATCATCAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13378883 146 +  21915920 GATGTATAAGCTTT-TTCTTTACTT-GACCCTGGAAATCATCTTCGGTGATGTTAACATCTATATCGAGGATTCTTCTAAGTCTTTGATTTTAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTTCCTTCTAGATCATCAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19879978 146 -  90373283 GATGTATAAGCTTt-ttctttacac-gaccctggaaatcatctttggtgatgtcaacatctatatcgaggactcttctaagtctttgattttaagattcttcaaacttttTAAGAGGATAGAATTT-TATCTTCCTTCTAGATTATCAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3376525 146 +   7543664 GATGTATAAGCTTT-TTCTTTACAC-GACCCTGGAAATCATCTTCAGTAATGTTAACATCTATATCGAGGATTCTTCTAAGTCTTTGATTTTAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTTCCTTCTAGATCATCAT
i manLeu1.NW_012103476v1    C 0 I 8691
s colAng1.NW_012120598v1      5145037 146 -  13750039 GATGTATAAGCTTt-ttctttacac-gaccccggaaatcatctttggtgatgttaacatctatatcgaggattcttctaagtctttgattttaagattcttcaaacttttTAAGAGGACAGAATTT-TATCTTCCTTCTAGATCATCAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26426700 146 +  50472720 GATGTGTAAGCTTT-TTCTTTACACAGACCTTGGAAATCATCTTCAGTGATGTTAAAAACTATATTAAGGATTCTTTTGAGTC-ATGGTTTTAAGATTCTTCAAACTTCTTTAGAGGACAGAATTT-TATCTTCTTTCTAGATCATCAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632555 146 +  13128814 GATGTGTCAGCTTT-TTCTTTACAGAGACCTTGGAAATCATCTTCAGTGATGTTAACAACTATATTAAGGATTCTTTTGAGTC-ATCGTTTTAAGATTCTTCAAACTTCTTAAGAGGACAGAATTT-TATTTTCCTTCTAGATCATCAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13854771 146 -  14377064 GATGTGTCAGCTTT-TTCTTTACACAGACCTTTGAAATCATCTTCGGTGATGTTAACAACTATATTAAGGATTCTTTTGAGTC-ATGGTTTTAAGATTCTTCAAACTTCTTAAGAGGACAGAATTT-TATCTTCCTTCCAGATCATCAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089241 146 -   9889416 GATGTGTAAGCTTT-TTCTTTACACAGACCTTGGAAATCACCTTTAGTGATGTTAACAACTGTATTAAGGATTCTTTTGAGTC-ATGGTTTTAAGATTCTTCAAACTTTTTAAGAGGACAGAATTT-TATCTTCCTTCTAGATCATCAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24795646 148 -  38779656 AGTGCAGAGTCTTTGCTCTTTACTCAGGGCATCACAGCAGTGTTCTAGGATGATAGCTTCTATATTGAGGACTCTTAGGTGCTTTTGGTTTTAAGATTCCTTGAACTCCTTAAGGCTATAAAAATT-TAGCTTTATATAAGTTCATTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17971496 142 +  39895921 GTTGTAGAATATTT-TTCTTTGCACAGGCCCTAGCAATCATCTACA--GATGTTGACAACTCTGCTGAGACCTCTTCAGAGACT----TTATAAGATTCCTCAAACTCCTTAAGTCAGTAACATTTCTAACTTCCTTTGATACTGGTAT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e nomLeu3.chr25               9194301 100 +  32716333 M

a score=1340367.000000
s hg38.chr21_GL383579v2_alt      8997 187 +    201197 TATCTTAACTATTACATGGCA---AATTGTGTCTCTTTCCTC-TTTTTTCTACAATATTAA-TGCTATCTGTCATCTCCCTTATTCCAACTCCCTCCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TCATATTCT------------------------------CTGACTTTGCC-----------AGTTATTTTAGGCAAC----------------------------------------------------------------------------------------TT----ATTCATTGTGTTT
s panTro5.chr21               8632667 187 +  33445071 TATCTTAACTATTACATGGCA---AATTGTGTCTCTTTCCTC-TTTTTTCTACAACATTAA-TACTATCTGTCATCTCCCTTATTCCAACTCCCTCCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TCATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCATTGTGTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22168196 188 +  46275980 TATCTTAACTATTACATGGCA---AATTGTGTCTCTTTCCTCTTTTTTTCTACAACATTAA-AACTATCTGTCATCTCCCTTATTCCAACTCCCTCCTATACACTAAACTTGCTTTTGT-TTCAAAATGTTTCACTAATCAA----TCATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCATTGTGTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149385 187 -  13858734 TATCTTAACTATTACATGGCG---AATTGTGTCTCTTTCCTC-TTTTTTCTACAACATTAA-TACTATCTGTCATCTCCCTTATTCCAACTCCCTCCTATACACTAAACTTGCTTTTGT-TGCAAAATGATTCACTAATCAA----TCATATTCT------------------------------CTCACTTTGCC-----------AATTATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCATTGTGTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160594135 187 - 185818997 GATTTTAACTGTTCCATGGCA---AATTATGTCTCATTCCTC-TTTTTCCTACAATATTAA-TACTATCTGTCATATCCCTTATTCCAACTCCTACCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TCATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCATTGGGTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167231103 187 - 192294377 GATTTTAACTGTTACATGGCA---AATTATGTCTCATTCCTC-TTTTTCCTACAATATTAA-TACTATCTGTCATATCCCTTATTCCAACTCCTACCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TCATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCATTGGGTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855676 187 -  30496662 GATTTTAACTGTTACATGGCA---AATTATGTCTCATTCCTC-TTTTTCCTACAATATTAA-TACTATCTGTCATATCCCTTATTCCAACTCCTACCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TCATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCATTGGGTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13379029 191 +  21915920 GATCTTAACTGTTACATGGCA---AATTATGTCTCATTCCTC-TTTTTTCTACGATATTAA-TACTAACTGTCGTATCCCTTATTCCAACTCCTACCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAG----TCACATTCT------------------------------CTGACTCTGCC-----------AATGATTTTAGACCAC----------------------------------------------------------------------------------------TTATTCATTCATTGCATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19880124 187 -  90373283 GATCTTAACTGTTACACGGCA---AATTATGTCTCATTCCTC-TTTTTTCTACAATATTAA-TACTATCTGTCATATCCCTTATTCCAACTCCTACCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TAATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAGGCCAC----------------------------------------------------------------------------------------TT----ATTCAATGCGTTT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5145183 187 -  13750039 GATCTTAACTGTTACATGGCA---AATTGTGTCTCATTCCTC-TTTTTTCTACAATATTAA-TACTATCTGTCGTATCCCTTATTCCAACTCCTACCTATACACTAAACTTGCTTTTGT-TTCAAAATGATTCACTAATCAA----TAATATTCT------------------------------CTGACTTTGCC-----------AATGATTTTAAGTCAC----------------------------------------------------------------------------------------TT----ATTCATTGTGTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26426846 186 +  50472720 GATCTTGACTATTACATGGCA---AATTACGTCTCATTCCTC-TTTTCTCTACAGTGTGAA-TACTATCTGTCATCTCCCTTATTCCAACTCCCACATACACACTAAAC-TGCTTTTGT-TTCAACATGATTCACTAATTGA----TCATATTCT------------------------------CTAACTTTGCC-----------AACGATTTTAGGACAT----------------------------------------------------------------------------------------GT----ATTCATTGCCTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632701 182 +  13128814 GATCTTGACTATTACATGGCA---AATTATGTCTCATTCCTC-TTTTTTCTACAGTGTGAA-TA----CTGTCATCTCCCTTATTCCAACTCCTACCTACACACTAAAC-TGCTTTGGT-TTCAACATGATTCACTAATTGA----TCATATTCT------------------------------CTAACTTTGCC-----------AATGATTTTAGGACAC----------------------------------------------------------------------------------------GT----ATTCATTGCCTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13854917 187 -  14377064 GATCTTGACTATTTCATGGCA---AATTATGTCTCATTCCTCTTTTTTTCTACAATGTGAA-TACTATCTGTCATCTCCCTTATTCCAACTCCCACCTACACACTAAGC-TGCTTTTAC-TTCAACATGATTCACTAATTCA----TCATATTCT------------------------------CTAACTTTACC-----------AATGATTTTAGGACAT----------------------------------------------------------------------------------------GT----ATTCATTGCCTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089387 178 -   9889416 GATCTTGACTATTACATGGCA---AATTA--------TCCTC-TTTTTTCTACAATGTGAA-TACTGTCTGTCATCTCCCTTATTCCAACTCCCACCTACACACTAAAC-TGCTTTTGT-TTCAACATGATTCACTAATTGA----TCATATTAT------------------------------CTAACTTTGCC-----------AATGATTTTAGGACAT----------------------------------------------------------------------------------------GT----ATTCATTGCCTTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24795794 323 -  38779656 GATCTTAATTATTATATGGCACAGAATTTAAGTGTATTCTTC--CTTTTCTACAATATTAATTACTACTTGGCATCTCTCTTATCCCAGCTCCTACCAATATGGTGAAATTGTTTTGTT-TTCAAATGAATTCACTAATTAGATACTCAGACTTTTAAtttttttttttttttttgagacagagcctcactgtgccacccttgatagagtgcccttgcgtcacagctcacagcaatctccaactcttgggattgagcgattctcttgtctcagcctcccaagtagctggaactacaggcacctgccacaaatt----ttttgttgcattt
i otoGar3.GL873528          C 0 I 137
s canFam3.chr31              17971638 161 +  39895921 GACCTTAATTATTGTTAGGCACAGAATTTAATTTGCATTCTT-CTTTTCCTTTCATAACAT-TGCTACTTTTCCTCTCTCTTATTCCAACTCCCACCCATATGCTAAACTTACATTTGTCTTTAAAAGGGTTTACTTTTAAA----GTAAACTTA------------------------------C--------CC-----------AATGTGTTC------------------------------------------------------------------------------------------------------------------
i canFam3.chr31             C 0 I 1
e dasNov3.JH578070            2251482 448 +   3081153 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I
e nomLeu3.chr25               9194301 100 +  32716333 M

a score=518883.000000
s hg38.chr21_GL383579v2_alt      9184  75 +    201197 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAA---CTCTAT---GGAGAAAAAT
s panTro5.chr21               8632854  75 +  33445071 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAA---TTCTGT---GGAGAAAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22168384  75 +  46275980 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAA---TTCTGT---GGAGAAAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149572  75 -  13858734 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAA---CTCTAT---GGAGAAAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160594322  78 - 185818997 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAAAAGCTCTAT---GGAGAAAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167231290  78 - 192294377 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAAAAGCTCTAT---GGAGAAAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855863  77 -  30496662 TTTC---------------CTAAGTTGCA-AGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAAAAGCTCTAT---GGAGAAAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13379220  78 +  21915920 TTCC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAAAAGCTCTAT---GGAGAAAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19880311  76 -  90373283 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAGTAT------GA------------------------------------AA---AAAAAA--CTCTAT---GGAGAAAAAT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5145370  79 -  13750039 TTTC---------------CTAAGTTGCATAGACATTAAAATATAAATGCTAAGTAAAAGAATAT-----GGA------------------------------------AA---AAAAAAAACTCTAT---GGAGAAAAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26427032  80 +  50472720 TTCC-------------CCCCAAGTTCTGTAGTCATTAAAATATAAATATGAAGTAAAAGAGTAT------TA------------------------------------AA---AAAAAAAACTCTAT---AGAGAAGAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8632883 129 +  13128814 CCCCCACCCCCCTCCCGCCACCGGTTCCATAGTCATTAAAATGTAAGTGTGAAGTAAAAGTGTAT------TAaaaacaaacaaacaaacaaacaaaacaaaacaaaacaa---aacaaaaACTCTAC---AGAGAAGAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13855104  82 -  14377064 TCCC-------------CCAGAAGTTCCATAGTCATTAAAATAT--GTGTGAAGTAAAAGAGTAT------TAAAAA--------------------------------AA---AAAAAAAACTCTGT---GGGGAAGAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089565  88 -   9889416 TTCC-------------ACCCAAGTTCCATAGTCATTAAAATATAAGTGTAAAGTAAAAGAGTAC------Taaaaaaaat----------------------------aa---aaaaaaaaCTCTAC---AGAGAAGAAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24796254  84 -  38779656 TTTC---------------CAAAATTTCATTGTCATAAATACATAAATGTTAAGTAAAAGTGTGTGTGAAGGA------------------------------------GA---AAAAAAATTTATAA---AGAAAAGAAT
i otoGar3.GL873528          I 137 C 0
s canFam3.chr31              17971800  84 +  39895921 TTTC---------------CTAAATTGCATTGTCATTAAAACATAAATGTCAAGTATAAGTCTAT------AA------------------------------------AAATGAAAAAATGCTCTATAAGAGAGAGGAGT
i canFam3.chr31             I 1 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I
e nomLeu3.chr25               9194301 100 +  32716333 M

a score=1880728.000000
s hg38.chr21_GL383579v2_alt      9259 202 +    201197 TGTCCTAATACAACCAAACCTATGCTTTTTCAATGCAGACAGCCCAGTCCC-AAAAAAGCACCTGAAGCTTGTTTTAGTT--TTCATTCTTCTTATGGTAAGAATACCTCAAAGACA---ATGAAAAAGATCCTCAAAGCAATGAATCCAAGGAAAGAATTTCATAAAGTTGCAAGATATTGTATCCTCTGTATGTAACACATCAAAA
s panTro5.chr21               8632929 202 +  33445071 TGTCCTAATACAACCAAACCTATGCTTTTTCAGTGCAGACAGCCCAGTCCC-AAAAAAGCACCTGAAGCTTGTTTTAGTT--TTCATTCTTCTTATGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAGTGAATCCAAGGAAAGAATTTCATAAAGTTGCAAGATATTGTATCCTCTGTATGTAACACATCAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22168459 202 +  46275980 TGTCCTAATACAACCAAACCTATGCTTTTTCAGTGCAGACAGCCCAGTCCC-AAAAAAGCACCTGAAGCTTGTTTTAGTT--TTCATTCTTCTTATGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAGTGAATCCAAGGAAAGAATTTCATAAAGTTGCAAGATATTGTATCCTCTGTATGTAACACATCAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149647 202 -  13858734 TTTCCTAATACAACCAAACCTATGCTTTTTCAATGCAGACAGCCCAGTCCC-AAAAAAGCACCTGAAGCTTGTTTTAGTT--TTCATTCTTCTTATGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAATGAATCCAAGGAAAGAATTTCATAAAGTTGCAAGATATTGTATCCTCTGTACGTAACACATCAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194401 202 +  32716333 TGTCCTAATACAACCAAACCTATGCTTTTTCAATGCAGACAGCCCAGTCCC-AAAAAAGCACCTGAAGCTTGTTTTAGTT--TTCATTCTTCTTATCGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAATGAATCCAAGGAAAGAATTTCATAAAGTTGCAAGATATTGTACCCTCTGTACATAATACATCAAAA
i nomLeu3.chr25             M 100 C 0
s rheMac8.chr3              160594400 200 - 185818997 TGTCCTAATACAATCAAACCTATGCTTTTTCAATGCAGACAGGCCAGTTCC-AAAAAAA-ATCTGAAACTTGTTTTAGCT--TTCATTCTTCTTGTGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAATCAATGAATCCAAGGAAATAATTTCGT-AAGTTGCAAGATACTGTGTCTTCTGTACATAATACATCAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167231368 200 - 192294377 TGTCCTAATACAATCAAACCTATGCTTTTTCAATGCAGACAGGCCAGTTCC-AAAAAAA-ATCTGAAACTTGTTTTAGCT--TTCATTCTTCTTGTGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAATCAATGAATCCAAGGAAATAATTTCGT-AAGTTGCAAGATACTGTGTCTTCTGTACATAATACATCAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4855940 201 -  30496662 TGTCCTAATACAATCAAACCTATGCTTTTTCAATGCAGACAGGCCAGTTCC-AAAAAAACATCTGAAACTTGTTTTAGCT--TTCATTCTTCTTGTGGTAAGAATACCTCAAAGAGG---ATGAAAAAGATCCTCAAATCAATGAATCCAAGGAAATAATTTCGT-AAGTTGCAAGATACTGTGTCTTCTGTACATAATACATCAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13379298 201 +  21915920 TGTCCTAATACAATCAAACTTATGCTTCTTCAATGCAGACAGCCCAATCCC-AAAAAAGCACCTGAAGCTTGTTTTAGCT--TTCATTCTTCTTGTGGTAAGAGTATGTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAACGAATCCAAGGAAATAATTTCAT-AAGTTGCAAGATACTGTATCCTCTGTATATAATACATCAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19880387 200 -  90373283 TGTCCTAATACAATCAAACCTATGCTTTTTCAATGCAGACAGCCCAGTACC-AGAAAAGCATCTGACACTTGTTTTAGCT--TTCATTCTTCTTGTGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAATGAATCCAAGGAAATAATTTCAT-AAGTTGCAAGATACTGTATCGTCTGTACATAATAAATC-AAA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5145449 201 -  13750039 TGTCCTAATACAATCAAACCTATGCTTCTTCAATGCAGACAGCCCAGTCCC-AAAAAAGCACCTGAAGCTTGTTTTAGCT--TTCATTCTTCTTGTGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCAATGAATCCAAGGAAATTATTTCAT-AGGTTGCAAGATACTGTGTCCTCTGTATATAATACATCAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26427112 199 +  50472720 TGTCCTAATATAACCAAACCTATGCCTTTTCAATGCAGAGAGCCCAGTCCC-AAAGAATTGCCTGAAACTTCTTTTAGCT--TTCA---TTCTTATGGTAAGAATACCTCAAAGATG---ATGAAAAAGATCCTCAAAGCACTAAATCCAAGGAATGAATTTCACAAAGTTGCAAGATATTGTATCCTCTATAAATAATAAATCAAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8633012 199 +  13128814 TGTCCTAATACAACCAGACCTTTGCCTTTTCAATGCGGAGAGCCCAGTCCC-AAAGAAGCGCCTGAAGCTTGTTTTAGCT--TTCA---TTCTTACGGTAAGAATACCTCAAAGAAG---ATGAAAAAGACCCTCAAAGCACTAAATCCAAGGAAAGAATTTCATAAAGTTGCTAGATATTGTATCCTCTATGCATAATACATCAAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13855186 200 -  14377064 TGTCCTGATATAACCAAACCTATGACTTTTCAATGCAGAGAGCCCAGTCCCAAAAGAAGTGCCTGAAGCTTGTTTTAACT--TTCA---TTCTTATGGTAAGAATACCTCAAAGAAG---ATGAAAAATATCCTCAAAGCACTAAATCCAAGGAAAGAATTTCACAAAGTTGCAAGATATTGTATCCTCTATGCATAATACATCAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9089653 199 -   9889416 TGTCCTAATATAACCAAACCTATGCCTTTTCAATGCGGAGAGCCCAGTCCC-AAAGAAGTGCCTGAAGCTTGTTTTGGCT--TTCA---TTCTTATGGTAAGAATACCTCAAAGAAG---ATGAAAAAGATCCTCAAAGCACCAAATCCAAGGAAAGAATTTCATAAAGTTGCAAGATATTGTATCCTCTATACACAATACATCAAAA
i aotNan1.NW_018487195v1    C 0 I 230
s otoGar3.GL873528           24796338 197 -  38779656 CTTCCTAATGCACCCAAACCTATGCTTTTTT-GTGTGAAAAACCCTGCCTC-CCCCAAGCACCTGAGGTTCATTTTAGCTCATTCATTCTTCCTATAACAGGGATACGTCAAAGATA---ATGAAAAAGACTCTCATGAGAACAAATCCAAGAAAA-AATATCATGAAGTT-----ATATTTTATCCTTTCTATATACTACATCAAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17971884 203 +  39895921 TCTCACAATGCAGT-GAACCTTTAATTGTTCATTGCAGGGACCTCAGCCCC-AAAGAAGCATCAGAGGCTTGTTTTAGAT--TCATTTTTTTCTATAGTAAGAATACTTCAGAGAAGTTAATAAAAGAGATCCTC-TAGAAATGAATCCATGGAAAAAATGCTATACAGTTGGAAGATGTTCTATTGTCTTTACATAATACACCAAAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=3061230.000000
s hg38.chr21_GL383579v2_alt      9461 380 +    201197 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAG----AGGCC------TCTTTATCAGGGA----TGCCTGAATATCTCACATGTACAAAGTAGAATACCAAAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTT------ATCT-AGCTATACTTTATTCCAAACTCCATAT----ATTCACTCATCTCTCTATCTAGACTTCTgttgaccaatggaacttcttgtgaggaaagatacattttacatcttcgttgtgctatgttatccaccaggccaatatggctat--------t---------aaaagaggctagtg-gactgaacaattggatt--------------tttagattcatttaatttaaactcaaatagccaca--tgtagctagcagttg---cagtaCACAGAAAAGCTCTAGAG
s panTro5.chr21               8633131 380 +  33445071 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAG----AGGCC------TCTTTATCAGGCA----GGCCTGAATATCTCACATGTACAAAGTAGAATACCAAAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTT------ATCT-AGCTATACTTTATGCCAAACTCCATAT----ATTCACTCATCTCTCTATCTAGACTTCTgttgaccaatggaacttcttgtgaggaaagatacattttacatcttcgttgtggtatggtatccaccaggccaatatggctat--------t---------aaatgaggctaggg-gactgaacaattggatt--------------tttagtttcatttaatttaaactcaagtagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22168661 380 +  46275980 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAG----AGGCC------TCTTTATCAGGGA----GGCCTGAATATCTCACATGTACAAAGTAGAATACCAAAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTT------ATCT-AGCTATACTTTATGCCAAACTCCATAT----ATTCACTCATCTCTCTATCTAGACTTCTgttgaccaatggaacttcttgtgaggaaagatacattttacatcttcgttgtgctatggtatccatcaggccaatatggctat--------t---------aaatgaggttaggg-gactgaacaattggatt--------------tttagtttcatttaatttaaactcaagtagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8149849 380 -  13858734 GTACAAGTTTTTTCTAGGGATAAACTGGAGCTGTCTTCAG----AGGCC------TCTTTATCAGGGA----TGCCTGAATATCTCACATGTACAAAGTAGAATACCAAAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTT------ATCT-AGCTATACTTTATTCCAAACTCTATGT----ATTCACTCATCTCTCTATCTAGACTTCTgttgaccaatggaacttcttgtgaggaaagatacattttacatcttcgttgtgctatggtatccaccaggccaatatggctat--------t---------aaatgaggctagtg-gactgcacaattggatt--------------tttagtttcatttaatttaaactcaaatagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194603 380 +  32716333 GTACAAGGTTTTTCTATGGGTAAACTGGAGCTGTCTTCAG----AGGCC------TCTTTATCAGGGA----TGCCTGAATATCTCACATGTACAAAGTAGAATACCAAAGGGGCACTTGGTTTTGTGCCTGTAGCAGG-CATTTTTT------ATCG-AGCTATACTTTATTCCAAACTCCATAT----ATTCACTCATCTCTCTATCTAGACTTCTgttgaccgatggaacttcttgtgaggatagatacattttacatcttcattgtgctatggtgtccaccaggccaatatggctat--------t---------aaatgaggctagtg-gactgaacaattggatt--------------tttagtttaatttaatttaaactcaaatagccaca--tgtagctagcagtta---cagtagacagAAAAGCTCTAGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160594600 385 - 185818997 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGCTAGGCT------TCTTCATCAGGGA----TGCCTGAATATCTCACATGGACAAAGTAGAATACCAGAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTTT-----ATCT-AGCTATACTTTATTCCAAACTCCATAT----ATTCACTCATCTCTGTGTCTCGACTTCTGTTGACCAGTGGAACTTCTTGTGAGGATAGATATATTTTACATCTTCACTGTACTGTGGTAACCACCAGGCCAATATGGCCAT--------T---------aaatgcagctagtg-gactgaacaactggatt--------------tttggttttatttaacttaaactcaaatagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167231568 385 - 192294377 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGCTAGGCT------TCTTCATCAGGGA----TGCCTGAATATCTCACATGGACAAAGTAGAATACCAGAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTTT-----ATCT-AGCTATACTTTATTCCAAACTCCATAT----ATTCACTCATCTCTGTGTCTCGACTTCTgttgaccagtggaacttcttgtgaggatagatatattttacatcttcactgtactgtggtaaccaccaggccaatatggccat--------t---------aaatgcagctagtg-gactgaacaactggatt--------------tttggttttatttaacttaaactcaaatagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4856141 385 -  30496662 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGCTAGGCT------TCTTCATCAGGGA----TGCCTGAATATCTCACATGGACAAAGTAGAATACCAGAGGGACACTTGGTTTTGTGCCTGTAGCAGG-TATTTTTTT-----ATCT-AGCTATACTTTATTCCAAACTCCATAT----ATTCACTCATCTCTGTGTCTCAACTTCTGTTGACCAGTGGAACTTCTTGTGAGGATAGATATATTTTACATCTTCACTGTACTGTGGTAACCACCAGGCCAATATGGCCAT--------T---------aaatgcagctagtg-gactgaacaactggatt--------------tttggttttatttaacttaaactcaaatagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13379499 394 +  21915920 GTATGAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGCTAGGCT------TCTTCATCAAGGA----TGCCTGAATATCTCACATGGACAAAGTAGAATACCAGAGGGACACTTGGTTTTGTGCCTGCAGCAGG-TATTTTTTT----AATCT-AGCTATACTTTATTCCAAACTCCATAT----ATTCACTCATCTCTGTGTCTCGACTTCTgttgaccaatggaacttcttgtgaggatagatatattttacatcttcattgtactatggtaaccaccaggccaatatggctattaaatgaat---------aaatgcagctagtg-gactgaacaactggata--------------tttggttttatttaacttaaactcaaatagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19880587 387 -  90373283 GTGCAAGGTTTTCCTAGGGATAAACTGGAGCTGTCTTCAGAGCTAGGCT------TCTTCATTAGGGA----TGCCTGGATACCTTACATGGACAAAGTAGAATACCAGAGGGACACTTGGTTTTGTGCCTGCAGCAGG-TATTTTTTT-----ATCT-AGCTATACTTTATTCCAAACTCCATAG----ATTCACTCATCTCTGTGTCTCGACTTCTgttgaccaatggaacttcttgtgaggatagatatattttacatcttcattgtactatggtaaccaccagaccaatatggctattaaatgatt---------aaatgcagctagtg-gactgaacaattggatt--------------tttggttttatttaactt------aaatagccaca--tgtagctagcagttg---cagtagacagAAAAGCTCTAGAC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5145650 392 -  13750039 GTACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGGTAGGCTTCTTCATCTTCATCAGAGA----TGCCTGAATATCTCACATGGACAAAGTAGAATACCAGCGGGACACTTGGTTTTGTGCCTGTAGCAGGTTATTTTTTT-----ATCT-AGCTGTACTTGATTCCAAACTCCATAT----ATTCACCCATCTCTGTGTCTAGACTTCTgttgaccaacggagctgcttgtgaggatagatatgttttacatcttcattgtactatggtaaccaccaggccaacatggctat--------t---------aaatgcaactagtg-gactgaacaattggatt--------------tttggttttatttaacttaaactcaaatagccaca--tgtagccggcagttg---cggtagacagAAAAGCTCTAGAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26427311 396 +  50472720 -TACAAGCTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGCTACGCT------CCTTTATCAGGGA----TACCTGGATATCTCACATGTGCAAAGTAGAATACCAAAGAGACACTTCGTTTTGTGCCTGTAGCAGG-TACTT-TTTAAAAAATCT-AGCTTTACTTTATTCCAAACTGCATAT----ATTCATTCATCTCTGTGTCTAGACTTCTGTAGAccaatggaacatctcgtgatgataaatatgttgtacatctgcatggtgctatggtattccctgggccaatatggctat--------tgcacacatgaagtgcagatagtg-gactcaacaacaggatt--------------ttttgttttatttaatttaaactcaaatagccaca---gtagctagcagttg---cattagatagAGATGCTCTAGag
i calJac3.chr21             C 0 I 90
s saiBol1.JH378168            8633211 397 +  13128814 -TACAAGGTTTTTCTAGGGATAAACTTGAACTGTCTTCAGAGCTAGGCT------CCTTTATCAGGGA----TGCCTGAATATCTCACAGGTACAAAGTAGAATACCAAAGAGACACTTCGTTTTGTGCCTGTAGCAGG-TACTTCTTTTAAAAATCT-AGCTTTACTTTATTCCAAACTGCATAT----ATTCATTCATCTCTGTGTCTAGACTTCTGCAGAccaatggaacatcttgtgatgataaatatgttgtacagcttcattgtgctgtggtatccactgggccaatatggctac--------tgcacacttgaaatgcagatagtg-gactgaacaactggatt--------------ttttgttttatttaatttaaactcaaatagccaca---gtagctggcagttg---cattagatagAAATGCTCTAGag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13855386 397 -  14377064 -TACAAGGTTTTTCTAGGGATAAACTGGAGCTGTCTTCAGAGCTAGGCT------CCTTTATCAGGAA----TGCCTGAATGTCTCACATGTACAAAGTAGAATACCGAAGAGACACTTTGTTTTGTGCCTGTAGCAGG-TACTTTTTTAAAAAATCA-AGCTTTACTTTATTCCAAACTGCATAT----ATTCATTCATCTCTGTGTCTAGACTTCTGTAGAAcagtggaacatcttgtgatgataaatatgttgtgcatcttcattgtgctatgatatccactgggccaatatggctac--------tgcacacatgaaaggcagatagtg-gactgaacaacaggatt--------------ttttgttttatttaatttgaactcaaatagccaca---gtagctagcagttg---cattagatagAAATGCTCTAGag
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24796535 406 -  38779656 GGACTGGGTTTTTCTAGGGAT-AACTGGAATTCTCTTCAGAAGTGGGTT------TCTTTAACAAGAAACATGACATAAGTGTGTCAGATGTACAAAACAGAATGCCAAGGGGACATTTGACTTCATGCTTACTGCAGA-CAATTGTT------ATC-------TACTTCATTCCAAAGTATATAC----ATTTACTCATTTCTCTGTCTAGACTTTTgctgaccagtggaatttcttgtgataatggag--gttttataccagcattgcagtctggtatccactaggctgatatggttac--------caagcaccctaattgacgctagggcaaccaaacagctggattttggtttggtttggtttagtttaaattaatttagatttaagtagccaca--tatggctaaaagttacaccattagatagcacagCTCTGTAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17972087 374 +  39895921 GTACAGGAATATTCTGGGGATGAGCT------------------GGGTT------TCTCTAACACG-A----TACATGCATATCTAACATGTGCAGACTAGAATGCCAAAGAGACACTCAGTTTTGTGCTTGTGTTAGA-TGATTTTC------ATGTAAACTATGATTTATTCCAAACTACATATGTTCACTCACTCATATCTGTGTTTAGACTACTGCTAAAcaatgcaacttactatgacgataaatttattctatgtctgcactgctctctgatagccaccaggctcatatgactac--------tgagtgcataaaatatgtctagtc--------caactgaatt--------------tttaattttatttaatttaaattgatgtaaatataaatttacacagccacat---CATTAGATAGTAAGGCTCTAGCA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=7085.000000
s hg38.chr21_GL383579v2_alt      9841 1 +    201197 G
s panTro5.chr21               8633511 1 +  33445071 G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169041 1 +  46275980 G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8150229 1 -  13858734 G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194983 1 +  32716333 G
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160594985 1 - 185818997 G
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167231953 1 - 192294377 G
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4856526 1 -  30496662 G
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13379893 1 +  21915920 G
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19880974 1 -  90373283 G
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146042 1 -  13750039 G
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8633608 1 +  13128814 g
i saiBol1.JH378168          C 0 I 37
s cebCap1.NW_016107322v1     13855783 1 -  14377064 g
i cebCap1.NW_016107322v1    C 0 I 165
s otoGar3.GL873528           24796941 1 -  38779656 A
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17972461 1 +  39895921 A
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=857469.000000
s hg38.chr21_GL383579v2_alt      9842 161 +    201197 TATTCACTTGAA-ATTTTTTGACATA----AACTGAGAACTTTAAAAACACGGTCAGTGCTACC-AAATGTTA-T-TTTCTCTGCCAAGCATCTTACAACTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGAACTTGTCTATC-AGAAATAAGCCAAA
s panTro5.chr21               8633512 161 +  33445071 TATTCACTTGAA-ATTTTTTGACATA----AACTGAGAACTTTAAAAACACGGTCAGTGCTACC-AAATGTTA-T-TTTCTCTGTCAAGCATCTTACAACTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AGAAATAAGCCAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169042 161 +  46275980 TATTCACTTGAA-ATGTTTTGACATA----AACTGAGAACTTTAAAAACACGGTCAGTGCTACC-AAATGTTA-T-TTTCTCTGTCAAGCATCTTACAACTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTATCTATC-AGAAATAAGCCAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8150230 161 -  13858734 TATTCACTTGAA-ATTTTTTGACATA----AACTGAGAACTTTAAAAACACGGTCAGTGCTACC-AAATGTTA-T-TTTCTCTGCCAAGCATCTTACAACTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AGAAATAAGCCAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9194984 161 +  32716333 TATTCACTTGAA-ATTTTTTGACATA----AACTGAGAACTTTAAAAACACGGTCAGTGCTACC-AAATGTTA-T-TTTCTCTGCCAAGCATCTTACATATTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AGAAACAAGCCAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160594986 159 - 185818997 TATTCATTTGAA-TTTTTTTGACATA----AACTGAGGACTTTAAAAACACGCTCAGTGCTACC---ATGTTA-T-TTTTTCTGCCAGGCATTTTACGCCTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AAAAACAAGCAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167231954 159 - 192294377 TATTCATTTGAA-TTTTTTTGACATA----AACTGAGGACTTTAAAAACACGCTCAGTGCTACC---ATGTTA-T-TTTTTCTGCCAGGCATTTTACGCCTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AAAAACAAGCAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4856527 161 -  30496662 TATTCATTTGAA-TTTTTTTGACATA----AA-TGAGGACTTTAAAAACACGCTCAGTGCTACC-AGATGTTATT-TTTTTCTGCCAGGCATTTTACGCCTTCACC----TATATATATGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AAAAACAAGCAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13379894 161 +  21915920 TATTCATTTGAA-TTTTTTTGACATA----AACTGAGGACTTTAAAAAGACGCTCAGTGCTACC-AGATGTTA-T-TTTTTCTACCAGGCATTTTACGCCTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AAAAACAAGCAAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19880975 161 -  90373283 TATTCATTTGAA-TTTTTTGGACATA----AACTGAGGACTTTAAAAACACACTCAGTGCTACC-AGATGTTA-T-TTTTTCTGCCAGGCATTTTACGCCTTCACC----TATATATGTGGCCTTTTGTATTTTCTAACAAGTTCAGATCTTGTCTATC-AAAAACAAGCAAAA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146043 162 -  13750039 TATTAATCTGAATTTTTTTTGACATA----AACTGAGGACTTTAAAAACACGCTCAGTGCTGCC-AGATGTTA-T-TTTTTCTGCCAAGCATTTTACATCTTCACC----TACATATGTGGCCTTTTGTATTTTCTAACAAGGTCAGATCTTGTCAATC-AAAAACAAGCAAAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24796942 157 -  38779656 TATTCCCTTGAA-TTTGTGTGGCA-A----AACTGAGCATTTAAAGAAAGCACTTAGTGTAAAC-AAA----A-TGTTTCTCTGCCACGCATCTCACATATTCATA----TATATAGGTAACCTTTTCTGCTTTCTAATAAGTTCAGATATCCTCTATA-AAAAATTAACAAAA
i otoGar3.GL873528          C 0 I 881
s canFam3.chr31              17972462 171 +  39895921 TATGGCCTTGCA-ATAGTGGAGCATAACCTAACTTAGAGTTTGAAGAGCTCACTTGGTGTTACCAAAATAGCA-T-TTTCCCTGCCAAGCATTGTACAGTTTCACCTATATATATATATGGCCTTTTCTCTTTTCTAACAAGTTCAGATCTCCTCTATTAAAAAACAAGCAAAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=256763.000000
s hg38.chr21_GL383579v2_alt     10003 50 +    201197 ATAATCGACAATAAAAAAAAT-CAACTTTACCTTGACTCAGCTTTTAGTAG
s panTro5.chr21               8633673 50 +  33445071 ATAATCGACAATAAAAAAAAT-CAACTTTACCTTTACTCAGCTTTTAGTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169203 50 +  46275980 ATAATCGACAATAAAAAAAAT-CAACTTTACCTTTACTCAGCTTTTAGTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8150391 50 -  13858734 ATAATCAACAATAAAAAAAAT-CAACTTCACCTTGACTCAGCTTTTAGTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9195145 49 +  32716333 ATAATCAACAAT-AAAAAAAT-CAACTTTACCTTGACTCAGCTTTTAGTAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160595145 49 - 185818997 ATAATCAACAAT-AAAAAATT-CAACTTTACCTTGACTCTGCTTTTAGCAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167232113 49 - 192294377 ATAATCAACAAT-AAAAAATT-CAACTTTACCTTGACTCTGCTTTTAGCAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4856688 49 -  30496662 ATAATCAACAAT-AAAAAATT-CAACTTTACCTTGACTCTGCTTCTAGCAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380055 49 +  21915920 ATGATCAACAAT-AAAAAATT-CAACTTTACCTTGACTCTGCTTTTAGCAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19881136 49 -  90373283 ATAATCAACAAT-AAAAAATT-CAACTTTACCTTGACTCTGCTTTTAGCAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146205 49 -  13750039 ATAATCAACAAT-AAAAAATT-CAACTTTACCTTGACTCTGCTTTTAGCAG
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24797980 48 -  38779656 ATCATCAATTATAACAACAGA-AAACTTGACCTTGACTCAGTTTTT--TAG
i otoGar3.GL873528          I 881 C 0
s canFam3.chr31              17972633 51 +  39895921 ATCAGCAACAATAGCAAAACTGAAATTTTACCTTGACTCAGCTCTTAGTAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=10670.000000
s hg38.chr21_GL383579v2_alt     10053 2 +    201197 TA
s panTro5.chr21               8633723 2 +  33445071 TA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169253 2 +  46275980 TA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8150441 2 -  13858734 TA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9195194 2 +  32716333 TA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160595194 2 - 185818997 TA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167232162 2 - 192294377 TA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4856737 2 -  30496662 TA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380104 2 +  21915920 TA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19881185 2 -  90373283 TA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146254 2 -  13750039 TA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24798028 2 -  38779656 CA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17972684 0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=2986607.000000
s hg38.chr21_GL383579v2_alt     10055 689 +    201197  
s panTro5.chr21               8633725 691 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169255 685 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8150443 688 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9195196 675 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160595196 700 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167232164 699 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4856739 701 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380106 712 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19881187 695 -  90373283  
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146256 674 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17972684   0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e otoGar3.GL873528           24798030   0 -  38779656 C
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=4664.000000
s hg38.chr21_GL383579v2_alt     10744 1 +    201197 a
s panTro5.chr21               8634416 1 +  33445071 a
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169940 1 +  46275980 a
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151131 1 -  13858734 a
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9195871 1 +  32716333 a
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160595896 1 - 185818997 a
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167232863 1 - 192294377 a
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4857440 1 -  30496662 a
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380818 1 +  21915920 a
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19881882 1 -  90373283 a
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146930 1 -  13750039 a
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24798030 1 -  38779656 G
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17972684 0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=166611.000000
s hg38.chr21_GL383579v2_alt     10745 33 +    201197 tattcttattttctGGTGCAACC-----TTTAAAAAAA
s panTro5.chr21               8634417 33 +  33445071 tattcttattttctGGTGCAACC-----TTTAAAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169941 33 +  46275980 tattcttattttctGGTGCAACC-----TTTAAAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151132 33 -  13858734 tattcttattttctGGTGCAACC-----TTTAAAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9195872 38 +  32716333 tattcttattttctGGTGCAACCAGAAAATTAAAAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160595897 33 - 185818997 tatTCTTACTTTCTGGTGCAACT-----TTTAAAAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167232864 33 - 192294377 tatTCTTACTTTCTGGTGCAACT-----TTTAAAAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4857441 33 -  30496662 tattcttactttctGGTGCAACT-----TTTAAAAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380819 33 +  21915920 tattcttactttctGGTGCAACT-----TTTAAAAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19881883 33 -  90373283 tatTCTTACTTTCTGGTGCAACT-----TTTAAAAAAT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5146931 33 -  13750039 tatTCTTACTTTCTGGTGCAAAT-----TTTAAAAAAT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24798031 33 -  38779656 TATTTTTATTTTCTGGCCCAACA-----TGGTTCAAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17972684 33 +  39895921 TATGCTTATTTTCTGACCTTGCT-----TTATTCAAGT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e manLeu1.NW_012103476v1      3376671 8691 +   7543664 I

a score=716202.000000
s hg38.chr21_GL383579v2_alt     10778 107 +    201197 TTGACTTCTGACCAAATCTTTATCACACTGCAATATGGATTTTACACTAGTGTATTTCTTATGTCTAAAATATC--TT---AGAATGTATTTGTATAATATATTGGCAATCT
s panTro5.chr21               8634450 107 +  33445071 TTGACTTCTGACCAAATCTTTATCACATTGCAATATGGATTTTACACTAGTGTATTTCTTATGTCTAAAATATC--TT---AGAATGTATTTGTATAATATATTGGCAATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22169974 107 +  46275980 TTGACTTCTGACCAAATCTTTATCACATTGCAATATGGATTTTACACTAGTGTATTTCTTATGTCTAAAATATC--TT---AGAATGTATTTGTATAATATATTGGCAATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151165 107 -  13858734 TTGACTTCTGACCAAATCTTTATCACATTGCAATATGGATTTTACACTAGTGTATTTCTTATGTCTAAAATATC--TT---AGAATGTATTTGTATAATATATTGGCAATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9195910 107 +  32716333 TTGACTTCTGAACAAATCTTTATCACATTGCAATCTGGATTTTACACTAGTGTATTTCTTATGTCTAAAATATC--TT---AGAATGTATTTGTATAATATATTGGCAATCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160595930 107 - 185818997 TTGACTTCTGACCAAATCTTTATCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCTAAAATATC--TT---AGAATTTATTTGTATAATATATTGGCAATCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167232897 107 - 192294377 TTGACTTCTGACCAAATCTTTATCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCTAAAATATC--TT---AGAATTTATTTGTATAATATATTGGCAATCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4857474 107 -  30496662 TTGACTTCTGACCAAATCTTTATCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCTAAAATATC--TT---AGAATTTATTTGTATAATATATTGGCAATCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380852 107 +  21915920 TTGACTTCTGACCAAATCTTTATCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCTAAAATATC--TT---AGAATTTATTTGTATAATATATTGGCAATCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19881916 107 -  90373283 TTGACTTCTGACCAAATCTTTGTCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCTAAAATATC--TT---AGAATTTATTTGTATAATATATTGGCAATCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3385362 107 +   7543664 TTGACTTCTGACCAAATCTTTATCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCTAAAATATC--TT---AGAATTTATTTGTATAATATATTGGCAATCT
i manLeu1.NW_012103476v1    I 8691 C 0
s colAng1.NW_012120598v1      5146964 107 -  13750039 TTGACTTCTGACCAAATCTTTATCACACTGCAATCTGGATTTTACACTAGTGTATTTTGTATTTCCAAAATATC--TT---ACAATTTATTTGTATAATTTATTGGCAATCT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24798064 109 -  38779656 TTGAATTCCGGTCAAGACCATACTTCACCGTAATCTGGATTTTATGCACATTTGTTTCTTATATCAAAAGCACCATTT---AAATTTTATGTGTATAGTATTTTAATAATCA
i otoGar3.GL873528          C 0 I 945
s canFam3.chr31              17972717 109 +  39895921 TTCACTGCTGGCCAAGTCCTTACCCTGTTGCAATGTGGATTCTACAGTCATACATTTCTTGTTTCAAAAATATT--TTTTAAGAGTCTATTTATATAAT-TTTTGGCATTCT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=2516431.000000
s hg38.chr21_GL383579v2_alt     10885 371 +    201197 AGATGAATGAGATATTGTTTATGCCTCTGAAAAGGAAAGTGGTGATCTAAAGAGAC-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTACCTGATATTATTA--------CTACTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTTTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATACTTACAG---TTATGACT--TCATTTTGTATTATTAATACTGATTATACATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACTTCAAATTCATAATATCATGAAATCTTGAAT---ACATGTGA--GATAAATGATTTGTTATTTAGTTCTT
s panTro5.chr21               8634557 371 +  33445071 AGATGAATGAGATATTGTTTATGCCTCTGAAAAGGAAAGTGGTGATCTAAAGAGAC-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTACCTGATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAG---TTATGACT--TCATTTTGTATTATTAATACTGATTATACATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACTTCAAATTCATAATATCATGAAATCTTGAAT---ACATGTGA--GATAAATGATTTGTTATTTAGTTCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170081 371 +  46275980 AGATGAATGAGATATTGTTTATGCCTCTGAAAAGGAAAGTGGTGATCTAAAGAGAC-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTACCTGATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAG---TTATGACT--TCATTTTGTATTATTAATACTGATTATACATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACTTCAAATTCATAATATCATGAAATCTTGAAT---ACATGTGA--GATAAATGATTTGTTATTTAGTTCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151272 371 -  13858734 AGATGAATGAGATATTGTTTATGCCTCTGAAAAGGAAAGTGGTGATCTAAAGAGAC-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTACCTGATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTACTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAG---TTATGACT--TCATTTTGTATTATTAATACTGATTATACATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACTTCAAATTCATAATATCATGAAATCTTGAAT---ACATGTGA--GATAAATGATTTGTTATTTAGTTCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196017 374 +  32716333 AGATGAATGAGATATTGTTTATGCCTCTGAAAAGGAAAGTGGTGATCTAAAGAGAT-AAGAGAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTAGCTGATATTATTA--------CCATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAATTACTTTAAAAGATGTTAGATATAAAATATTTACAG---TTATGACT--TAATTTTGTATTATTAATACTGATTATACATAAT-TAAAAGGGTGGTATGGAACTTAATATTTTACTTCAAATTCATAATATCATCAAATCTTGAATACCACATGTGA--GATAAATGATTTGTTATTTAGTTCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596037 377 - 185818997 AGATGAATGAGATATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTATCTTATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAGTTATTATGACT--TACTTTTGTATTATGAATACTGATTATGCATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACCTCAAATTCATAATATCATGAAATCTTGAATACAACATGTAA--GCTAAAGGATTTGTTATTTAGTTCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167233004 377 - 192294377 AGATGAATGAGATATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTATCTTATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAGTTATTATGACT--TACTTTTGTATTATGAATACTGATTATGCATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACCTCAAATTCATAATATCATGAAATCTTGAATACAACATGTAA--GCTAAAGGATTTGTTATTTAGTTCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4857581 377 -  30496662 AGAAGAATGAGATATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAATATCTGATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAGTTATTATGACT--TACTTTTGTATTATGAATACTGATTATGCATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACCTCAAATTCATAATATCATGAAATCTTGAATACAACATGTAA--GCTAAAGGATTTGTTATTTAGTTCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13380959 377 +  21915920 AGATGAATGAGATATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCGTATGTTTGATTTTGAGTATCTGATATTATTA--------CTATTCTGGGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTATTTTGAAAGATGTTAGATATAAAATATTTACAGTTATTATGACT--TACTTTTGTATTATGAATACTGATTATGCATAAT-AAAAAGAGTGGTATAGAACTTAATATTTTACTTCAAATTCATAATATCATGAAATCTTGAATACAACATGTAA--GCTAAAGGATTTGTTATTTAGTTCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19882023 377 -  90373283 AGATGAATGAGACATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTATCTGATATTATTA--------TTATTCTGTAAAATCT---AAGTCT--GT--CTTAAATTCTCTGTCAGCTTTTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAGTTATTATGACT--TAATTTGGTATTATGAATACTGATTATGCATAAC-AAAAAGGGTGGTATAGAACTTAATATTTTACCTCAAATTCATAATATCATGAAATCTTGAATACAACATGTGA--GCTAAAGGATTTGTTATTTAGTTCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3385469 377 +   7543664 AGATGAATGAGATATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTATCTGATATTATTA--------CTATTCTGGGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACAGTTATTATGACT--TACTTTTGTATTATGAATACTGATTATGCATAAT-AAAAAGGGTGGTATAGAACTTAATATTTTACCTCAAATTCATAATATCATGAAATCTTGAATACAACATGTGA--GCTAAAGGATTTGTTATTTAGTTCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5147071 377 -  13750039 AAATGAATGAGATATTGTTTATGCCTCTGAAGAGGAAAGTGGTGATCTAAAGAGAT-AAGACAAATTTCCTTGGGACTCCATATGTTTGATTTTGAGTATCTGATATTATTA--------CTATTCTGTGAAATCT---AAGTCT--GT--CTTAAATTCTGTGTCAGCTTCTGAGCATTGAACTTTTATTCTTTTTGTTACATATCTTAAAGTTACTTTGAAAGATGTTAGATATAAAATATTTACGGTTattatgact--taattttgtattatgaatactgattatgCATAAT-AAAAAGGGCGGTATAGAACTTAATATTTTACCTCAAATTCATAATATCATGAAATCTTGAATACAACATATGA--GCTAAAGGATTTGTTATTTAGTTCTT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24799118 380 -  38779656 ACATGGATAAGGTATTATTTCTGCCTTCAAAAACAAAAA-AGTGATCTACAGATATAAAGACAAATTCCCTTGGGACTTCATCTATTTG-------GTATCTCATATTATTATTACATTTCCATACTGTGAAATTC---AAGTGT--ATGATTTGGATTTGATGTCAGCTTCTGAGAACCAAGTATTT-TTATCTTTGTTACATACCTTAAGGTTTCTTTTCAAGGTATTAGATGTCCAATATTTACATTTATTATAAGCAACAATGGTTTATTATTAATATTGCTTATGGATAAT-AAAAATGGTGGTCTACAACTGCATGTTTTCCTTTAAATTTATAATTTCTTGAAGTCTCCATT---ATATGAGATGAATAGAAGGTTTGTTATTTAGTTCTT
i otoGar3.GL873528          I 945 C 0
s canFam3.chr31              17972826 374 +  39895921 AGATGAATAAGATATTACTTCTGCCT-TGAGAAAGGAAGGAGTGGACTAAAGAGAA-ATG---AATTGCCTTGGGATTCCATCTATTATATTGTAAGCACCTAATTTTATCA--------CTATTCTGTGAACTATTGAAAATCTTATT--GTTGAATGCTGTGTCAGCTTCTGAATATTTAATGTTT---TTGTTTGCTACAGATATTTGAGTTGCTTTTCAAGATGTTAGGGATCAAATATTTACAGTTATTATCACTAATAATGGCAAACTGTTAATATTAATTATAGGTAACAAAAAAGAGTGGTGTAGTACTTAGTATTTTAGTATAAATTCATAATCTCATGAAGTCTTAATTATATGAGATGA--ATTAAGGG----GTTGTTTAATTCTT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=170354.000000
s hg38.chr21_GL383579v2_alt     11256 28 +    201197 AATGTATGTTTATGTGATTACAATAGGc
s panTro5.chr21               8634928 28 +  33445071 AATGTATGTTTATATGATTACAATAGGc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170452 28 +  46275980 AATGTATGTTTATATGATTACAATAGGc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151643 28 -  13858734 AATGTATGTTTATATGATTACAATAGGc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196391 28 +  32716333 AATGTATGTTTATATGATTACAATAGGc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596414 28 - 185818997 AATGTATGTTGATATGATTACAATAGGc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167233381 28 - 192294377 AATGTATGTTGATATGATTACAATAGGc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4857958 28 -  30496662 AATGTATGTTGATATGATTACAATAGGc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13381336 28 +  21915920 AATGTATGTTGATATGATTACAATAGGc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19882400 28 -  90373283 AATGTATGTTGATATGATTACAATAGGc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3385846 28 +   7543664 AATGTATGTTGATATGATTACAATAGGc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5147448 28 -  13750039 AATGTATGTTGGTATGGTTACAATAGGc
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17973200 26 +  39895921 --AACATGTTACTATTTTTATATTAGGC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24799498  0 -  38779656 C

a score=1352071.000000
s hg38.chr21_GL383579v2_alt     11284 233 +    201197 atcccaacccatcaatgataggcttagtaaagaaaatgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatgttctttgcagggatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacag-aaaaccaaacaccacgtgttctcactcataagtgggagttgaacattgagaacacatggacatagaggggaaca--acac
s panTro5.chr21               8634956 235 +  33445071 atcccaacccatcaatgataggcttaataaagaaaatgtg--atatatatacaccatggaacactatgcagccataaaaaggaatgagatcatgttctttgcagggatatggatgaagctggaagatatcatcctcagcaagctaacacagaaacag-aaaaccaaacaccacgtgttctcactcataagtgggagttgaacattgagaacacatggacacagaggggaacaacacac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170480 235 +  46275980 atcccaacccatcaatgataggcttaataaagaaaatgtg--atatatacacaccatggaacactatgcagccataaaaaggaatgagatcatgttctttgcagggatatggatgaagctggaagatatcatcctcagcaagctaacacagaaacag-aaaaccaaacaccaagtgttctcactcataagtgggagttgaacattgagaacacatggacacagaggggaacaacacac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151671 235 -  13858734 atcccaacccatcaatgataggcttaataaagaaaatgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatgttctttgcagggatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacag-aaaaccaaacaccacgtgttctcactcataagtgggagttgaactttgagaacacatggacacagagtggaacaacacac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196419 237 +  32716333 atcccaacccatcaatgatagacttaataaagaaaatgtgatatatatatacaccatggaatactatgcagccataaaaaggaatgagatcatgttctttgcagggatatggatgaagctggaagacatcatcttcagcaagctaacacagaaacag-aaaaccaaacaccacgtgttctcactcataagtgggagttgaacattgagaacacatggacacagaggggaagaacacac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596442 234 - 185818997 atcccaacccatcaatgataggcttaataaagaaaacgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatggtctttgcagggatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggacactgaggggaacaacac--
i rheMac8.chr3              C 0 I 2
s macFas5.chr3              167233409 234 - 192294377 atcccaacccatcaatgataggcttaataaagaaaacgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatggtctttgcagggatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggacactgaggggaacaacac--
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      4857986 234 -  30496662 atcccaacccatcaatgataggcttaataaagaaaacgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatggtctttgcagagatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggacactgaggggaacaacac--
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13381364 234 +  21915920 atcccaacccatcaatgataggcttaataaagaaaacgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatggtctttgcagggatatggatgaaactggaagacatcatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggacactgaggggaacaacac--
i cerAty1.NW_012002954v1    C 0 I 2
s chlSab2.chr2               19882428 234 -  90373283 atcccaacccatcaatgataggcttaataaagaaaacgtg--atatatatacaccatggaatgctatgcagccataaaaaggaatgagatcatggtctttgcagggatatggatgaagctggaagacattatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggacactgaggggaacaacac--
i chlSab2.chr2              C 0 I 693
s manLeu1.NW_012103476v1      3385874 234 +   7543664 atcccaacccatcaatgataggcttaataaagaaaacgtg--atatatatacaccatggaatactatgcagccataaaaaggaatgagatcatggtctttgcagggatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggacactgaggggaacaacac--
i manLeu1.NW_012103476v1    C 0 I 2
s colAng1.NW_012120598v1      5147476 234 -  13750039 atcccaaaccatcaatgataggcttaataaagaaaacgtg--atatatttacaccgtggaatactatgcagccataaaaaggaatgagatcatggtctttgcagggatatggatgaagctggaagacatcatcctcagcaagctaacacagaaacagaaaaatcaaacaccacgtgttctcactcgtaagtgggagttgaacattgagaacacatggatactgaggagaacaacac--
i colAng1.NW_012120598v1    C 0 I 2
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17973226   0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e otoGar3.GL873528           24799498   0 -  38779656 C

a score=752782.000000
s hg38.chr21_GL383579v2_alt     11517 164 +    201197 accagggcctgtgggggttgggtggtgaggggaggggaacttatgggatgggtcaatagatgcagcaaaccaccatggcgtgcatatacctgtgtaacaaacctgcacgttctgcgcatgtatcctggtttttaattttagaagaaatcaagaaaaaa----aat-aaa
s panTro5.chr21               8635191 160 +  33445071 accagggcctgtgggggttgggtggtgaggggaggggaacttatgggatgggtcaatagatgcagcaaaccaccatggcatgcatatacctgtgtaacaaacctgcacgttctgcacatgtgtcctggtttttaattttagaagaaatcaagaaaaa---------aaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170715 160 +  46275980 accagggcctgtgggggttgggtggtgaggggaggggaacttatgggatgggtcaacagatgcagcaaaccaccatggcatgcatatacctgtgtaacaaacctgcacgttctgcacatgtgtcctggtttttaattttagaagaaatcaagaaaaa---------aaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8151906 162 -  13858734 acca-ggcctgtgggggttgggtggtgaggggaggggaacttatgggatgggtcaatagatgcagcaaaccaccatggcatgcatatacctgtgtaacaaacctgcacgttctgcacatgtatcctggtttttaattttagaagaaatcaagaaaaa-----aaT-AAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196656 167 +  32716333 accagggcctatgggggttgggtggtgaggggaggggaacttacaggatgggtcaatagatgcagcaaaccaccatggcacacatatacctgtgtaacaaagctgcatgttctgcacatgtatcctggtttttaattttagaggaaatcaagaaaaaa-aaTaat-aaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596678 169 - 185818997 accaggacctgtgggggttgggtggtgaggggaggggaacgtaaagaatgggtcaataggtgcagcaaaccaccatggcacacgtatacctgtgtaacaaacctgcactttctgcacacgtatcccggtttttaattttagaagaaatcaagaaaaaaCaataatgaaa
i rheMac8.chr3              I 2 C 0
s macFas5.chr3              167233645 169 - 192294377 accaggacctgtgggggttgggtggtgaggggaggggaatgtaaagaatgggtcaataggtgcagcaaaccaccatggcacacgtatacctgtgtaacaaacctgcactttctgcacacgtatcccggtttttaattttagaagaaatcaagaaaaaaCaataatgaaa
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      4858222 169 -  30496662 accaggacctgtgggggttgggtggtgaggggaggggaacgtaaagaatgggtcaataggtgcagcaaaccaccatggcacacgtatacctgtgtaacaaacctgcactttctgcacacgtatcccggtttttaattttagaagaaatcaagaaaaaaCaataatgaaa
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13381600 169 +  21915920 accaggacctgtgggggttgggtggtgaggggaggggaacgtaaagaatgggtcaataggtgcagcaaaccaccatggcacacgtatacctgtgtaacaaacctgcactttctgcacacgtatcccggtttttaattttagaagaaatcaagaaaaaaCaataatgaaa
i cerAty1.NW_012002954v1    I 2 C 0
s manLeu1.NW_012103476v1      3386110 169 +   7543664 accaggacctgtgggggttgggtggtgaggggaggggaacgtaaagaatgggtcaataggtgcagcaaaccaccatggcacacgtatacctgtgtaacaaacctgcactttctgcacacgtatcccggtttttaattttagaagaaatcaaggaaaaaCaataatgaaa
i manLeu1.NW_012103476v1    I 2 C 0
s colAng1.NW_012120598v1      5147712 169 -  13750039 accaggacctgtgggggttgggtggtgaggggaggggaacgtaaaggatgggtcaataggtgcagcaaaccaccatggcacacttatacctgtgtaacaaacctgcacgttctgcacacgtatcccggtttttaattttagaagaaatcaagaaaaaaCAATAATGAAA
i colAng1.NW_012120598v1    I 2 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17973226   0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e otoGar3.GL873528           24799498   0 -  38779656 C
e chlSab2.chr2               19882662 693 -  90373283 I

a score=47138.000000
s hg38.chr21_GL383579v2_alt     11681 22 +    201197 aactaaaattaaaaaa---agaaaa
s panTro5.chr21               8635351 22 +  33445071 aattaaaattaaaaaa---agtaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170875 20 +  46275980 A--TTAAATTAAAAAA---AGTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8152068 22 -  13858734 AATTAAAATTAAAAAA---AGAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196823 21 +  32716333 aatgaaaattaaaaaa---a-aatc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596847 22 - 185818997 aatgaaaattaaaaaa---aaaatc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167233814 21 - 192294377 aatgaaaatt-taaaa---aaaatc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4858391 21 -  30496662 aatgaaaatt-aaaaa---aaaatc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13381769 22 +  21915920 aatgaaaattaaaaaa---aaaatc
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3386279 22 +   7543664 aatgaaaattaaaaaa---aaaatc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5147881 19 -  13750039 ATTAGAAA---AAAAA---ATAATC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24799498 25 -  38779656 AACGTAAGTTAATACACTTAAAGTC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17973226  0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e chlSab2.chr2               19882662 693 -  90373283 I

a score=11600.000000
s hg38.chr21_GL383579v2_alt     11703 5 +    201197 atccc
s panTro5.chr21               8635373 5 +  33445071 atccc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170895 5 +  46275980 ATCCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8152090 5 -  13858734 ATCCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196844 5 +  32716333 atccc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596869 5 - 185818997 ataac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167233835 5 - 192294377 ataac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4858412 5 -  30496662 ataac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13381791 5 +  21915920 attac
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3386301 5 +   7543664 ataac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5147900 5 -  13750039 ATTAC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24799523 4 -  38779656 ATCC-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17973226 5 +  39895921 ATCTC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e chlSab2.chr2               19882662 693 -  90373283 I

a score=870566.000000
s hg38.chr21_GL383579v2_alt     11708 162 +    201197 aaaatttaaaatgaaCCTTG--------------AATAGA------------TAAAGCAAAGCATTCCAAGCCAAGAAAACTGCATAAGGACATGAGGATAGGAGAAGTGTGtatacatatat----atat------------------------------------acactc------acacacacacaaacacacacaTATATAGTGGAAGTTTATGCATATGAGCAG----AATG----
s panTro5.chr21               8635378 154 +  33445071 aaaatttaaaattaaCCTTG--------------AATAGA------------TAAAGTAAAGCGTTCCAAGCCAAGAAAACTGCATAGGGACATGAGGATAGGAGAAGTGTGtatacatatat----atat--------------------------------------------------actcacacaaacacacacatataTAGTGGAAGTTTATGCATATGAGCAG----AATG----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22170900 154 +  46275980 AAAATTTAAAATTAACCTTG--------------AATAGA------------TAAAGTAAAATGTTCCAAGCCAAGAAAACTGCATAGGGACATGAGGATAGGAGAAGTGTGtatacatatat----atat--------------------------------------------------actcacacaaacacacacatataTAGTGGAAGTTTATGCATATGAGCAG----AATG----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8152095 198 -  13858734 CAAATTTAAAATTAACCTTG--------------AATAGA------------TAAAGTAAAACATTCCAAGCCAAGAAAACTGCATAGGGACATGAGGATAGGAGAAGTGTGTATacatacat----acatatatatatatattatatatatatatattatatatatatactc------acacacacacaaacacacacaTATATAGTGGAAGTTTATGCATATGAGCAG----AATG----
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9196849 164 +  32716333 aaaatttaaaattaaCCTTG--------------AATAGA------------TAAAGTAAAGCATTCCAAGCCAAGAAAACTGCATAGGGACATGAGGATAGGAGAAATGTGTGTGTATATAT----ATAT----------------------------------ATACGCTc------acacgcacacaaacacacacaTATATAGTGGAAGTTTATGCATATGAGCAG----AATG----
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160596874 170 - 185818997 aaaatttaaaattaaCCTTG--------------AATAGA------------CAAAGTAAAGCATACCAAGCCGAGAAAACTGCATAGAGACATGAGGATAGGAGAAGtatatatatgtgtgt----atat------------------------------atatacacactc----acacacacacacaaacacacacaTATATAGTGGAAGTTTATGCATATGAACAA----CATG----
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167233840 174 - 192294377 aaaatttaaaattaaCCTTG--------------AATAGA------------CAAAGTAAAGCATACCAAGCCGAGAAAACTGCATAGAGACATGAGGATAGGAGAAGtatatatatgtgtgt----atat------------------------------atatacacactcacatacacacacacacaaacacacacataTATAGTGGAAGTTTATGCATATGAACAA----CATG----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4858417 174 -  30496662 aaaatttaaaattaaCCTTG--------------AATAGA------------CAAAGTAAAGCATACCAAGCCGAGAAAACTACATAGAGACATGAGGATAGGAGAAGtatatatatgtgtgt----atat------------------------------atatacacactcacatacacacacacacaaacacacacataTATAGTGGAAGTTTATGCATATGAGCAA----CATG----
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13381796 170 +  21915920 aaaatttaaaattaaCCTTG--------------AATAGA------------CAAAGTAAAGCATCCCAAGCCGagaaaactgcatagggacatgaggataggagaagtatatatatgtgtgt----atac------------------------------atacatatacac----actcacatgcacAAACACACACATATATAGTGGAAGTTTATGCATATGAGCAA----CACG----
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19883355 178 -  90373283 aaaatttaaaattaaCCTTG--------------AATAGA------------CAAAGTAAAGCATTCCAAGCCGAGAAAACTGCATAGGGACATGAGGATAGGAGAAGTATATATATGTGTGTATacatac------------------------------atacacacactcacatacacacacacacaaacacacacatatataGTGGAAGTTTATGCATATGAGCAA----AATG----
i chlSab2.chr2              I 693 C 0
s manLeu1.NW_012103476v1      3386306 174 +   7543664 aaaatttaaaattaaCCTTG--------------AATAGA------------CAAAGTAAAGCATCCCAAGCCaagaaaactgcatagggacatgaggataggagaagtatatatatgtgtgt----atat------------------------------atatacacactcacttacacacacACACAAACACACACATATATAGTGGAAGTTTATGCATATGAGCAA----CATG----
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5147905 174 -  13750039 AAAATTTAAAATTAACCTTG--------------AATAGA------------CAAAGTAAAGCATTCCAAGCCaagaaaactgcatagggacatgaggataggagaagtatatatatgtgtgt----atac------------------------------atacatatacacactcacatacacACACACACACACACATATATAGTGGAAGTTTATGCATATGAGCAA----AATG----
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24799527 177 -  38779656 TCAATTTGAAATTATCCTCG--------------AACAAAAAAATATTTTATTAAAACATGACATTTCAGATCAAATAAA--------GAGCATGGGAATAGGAAAAGTATATATCTCTCTAT----ACTT------------------------------TTTTGTGAACT-----ATGTACATTTATTTATTTATTTGGCTAGGACAAGAGTTAATGCACATGAAAAGTTATACTG----
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17973231 146 +  39895921 AAAATTTGAAATTAATTTTGCGTAATAGCACTATATTAGT------------TAAAGTAGGACATTCCAGGCTAAGTAAACTG--------CATGGCAATGGGGAAAGTATATAGGTATACTT----GTTC--------------------------------------------------------------------GGTTAGTGTAAGACTTTATGCACATGAAAAG----GAAGATGG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=4036623.000000
s hg38.chr21_GL383579v2_alt     11870 886 +    201197  
s gorGor5.CYUI01015003v1      8152293 886 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197013 888 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597044 876 - 185818997  
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167234014 875 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4858591 886 -  30496662  
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13381966 889 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19883533 886 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3386480 886 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5148079 890 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24799704 900 -  38779656  
i otoGar3.GL873528          C 0 I 4
s canFam3.chr31              17973377 873 +  39895921  
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e panPan2.chr21              22171054   0 +  46275980 C
e panTro5.chr21               8635532   0 +  33445071 C

a score=31121.000000
s hg38.chr21_GL383579v2_alt     12756 28 +    201197 GCAAAAATAATATAAT-CATAGAACTTAT
s gorGor5.CYUI01015003v1      8153179 28 -  13858734 GCAAAAATAATATAAT-CATAGAACTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197901 28 +  32716333 GCAAAAATAATATAAT-CATAGAACTTAT
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167234889  2 - 192294377 --------------------AT-------
i macFas5.chr3              C 0 C 0
s cerAty1.NW_012002954v1     13382855 28 +  21915920 TCAAAAATAATATAAT-CATATAACTTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884419 28 -  90373283 TCAAAAATAATATAAT-CATAGAACTTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387366 28 +   7543664 TCAAAAATAATATAAT-CATATAACTTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5148969 28 -  13750039 TCAAAAATAATATAAT-CATATAACTTAC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24800608 18 -  38779656 --GAAAAAAAT---------TGAACTTAT
i otoGar3.GL873528          I 4 C 0
s canFam3.chr31              17974250 15 +  39895921 -----AATAATATAATGTAT---------
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4859477  1 -  30496662 I
e rheMac8.chr3              160597920  1 - 185818997 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e panPan2.chr21              22171054  0 +  46275980 C
e panTro5.chr21               8635532  0 +  33445071 C

a score=-3475.000000
s hg38.chr21_GL383579v2_alt     12784 2 +    201197 A-----G
s gorGor5.CYUI01015003v1      8153207 7 -  13858734 ATCATAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197929 7 +  32716333 ATCATAG
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13382883 2 +  21915920 A-----G
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884447 2 -  90373283 A-----G
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387394 2 +   7543664 A-----G
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5148997 2 -  13750039 G-----G
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17974265 2 +  39895921 -----AG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e macNem1.NW_012015021v1      4859477 1 -  30496662 I
e macFas5.chr3              167234891 0 - 192294377 C
e rheMac8.chr3              160597920 1 - 185818997 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24800626 0 -  38779656 C
e panPan2.chr21              22171054 0 +  46275980 C
e panTro5.chr21               8635532 0 +  33445071 C

a score=49395.000000
s hg38.chr21_GL383579v2_alt     12786 10 +    201197 CAAGAAGAAA
s gorGor5.CYUI01015003v1      8153214 10 -  13858734 CAAGAAGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197936 10 +  32716333 CAAGAAGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597921 10 - 185818997 CAAGAAGAAA
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167234891 10 - 192294377 CAAGAAGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4859478 10 -  30496662 CAAGAAGAAA
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13382885 10 +  21915920 CAAGAAGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884449 10 -  90373283 CAAGAAGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387396 10 +   7543664 CAAGAAGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5148999 10 -  13750039 CAAGAAGAAA
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17974267 10 +  39895921 AAAGAAGAAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24800626  0 -  38779656 C
e panPan2.chr21              22171054  0 +  46275980 C
e panTro5.chr21               8635532  0 +  33445071 C

a score=98722.000000
s hg38.chr21_GL383579v2_alt     12796 27 +    201197 TATATATCATATCATAGAAAG------------------------AAGAAA
s gorGor5.CYUI01015003v1      8153224 27 -  13858734 TATATATCATATCATAGAAAG------------------------AAGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197946 51 +  32716333 CATATATCATATCATAGCAAGAAGAAATATATATCATATCATAGAAAGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597931 27 - 185818997 TATATATCATATCATAGAAAG------------------------AAGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167234901 27 - 192294377 TATATATCATATCATAGAAAG------------------------AAGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4859488 27 -  30496662 TATATATCATATCATAGAAAG------------------------AAGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13382895 27 +  21915920 TATATATCATATCATAGAAAG------------------------AAGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884459 27 -  90373283 TATATATCATATCATAGAAAG------------------------AAGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387406 27 +   7543664 TATATATCATATCATAGAAAG------------------------AAGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5149009 27 -  13750039 CATATATCATATCATAGAAAG------------------------AAGAAA
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17974277  0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24800626  0 -  38779656 C
e panPan2.chr21              22171054  0 +  46275980 C
e panTro5.chr21               8635532  0 +  33445071 C

a score=1092.000000
s hg38.chr21_GL383579v2_alt     12823 2 +    201197 TT
s gorGor5.CYUI01015003v1      8153251 2 -  13858734 TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197997 2 +  32716333 TT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5149036 2 -  13750039 TT
i colAng1.NW_012120598v1    C 0 I 1
e dasNov3.JH578070            2251482 448 +   3081153 I
e cerAty1.NW_012002954v1     13382922 0 +  21915920 C
e macNem1.NW_012015021v1      4859515 0 -  30496662 C
e macFas5.chr3              167234928 0 - 192294377 C
e rheMac8.chr3              160597958 0 - 185818997 C
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17974277 0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24800626 0 -  38779656 C
e manLeu1.NW_012103476v1      3387433 0 +   7543664 C
e chlSab2.chr2               19884486 0 -  90373283 C
e panPan2.chr21              22171054 0 +  46275980 C
e panTro5.chr21               8635532 0 +  33445071 C

a score=79864.000000
s hg38.chr21_GL383579v2_alt     12825 313 +    201197 GGTCCTACCTCttttttttttttttttttttgagaaggagtttcactcttgttgctcaggctggagtgcaatggcgcaatctcggctcactgtaacctccacctcatgggttcaagcaattctcctgtctcagcgtcccgagtaactgggattacagacatgcaccaccacacccggctaatttttgtatttttagtagagatggggtttctccatgttggacaggctggtctcaaactcctgacctcaggtgatccacctgcctcggcctcccaaagtgctgggattgcaggcatgagccaccgagcccagc
s gorGor5.CYUI01015003v1      8153253 311 -  13858734 GTACTTACCTCttttttttttttttttttttgagaaggagtttcactcttgttgcccaggctggagtgcaatggcgcaatctcggctcactgtaacctccgcctcatgggttcaagcaattctcctgtctcagcgtcccgagtaactgggattacagacatgcaccaccac-cccggctaatttttgtatttttagtagagatgcggtttctccatgttggacaggctggtctcaaactcctgacctcagatgatccacctgcctcggc-tcccaaagtgctgggattgcaggcatgagccaccgagcccggc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9197999 310 +  32716333 GTACTTACC---tttttttttttttttttttgagacggagtttcactcttattgcccaggctggagtgcaatggtgcaatctcggctcactgtaaccttcgcctcatgggttgaagcaattctcctgtctcagcatcccgagtagctgggattacaggcatgcaccaccacacccggctaatttttgtacttttagtagagacggggtttctccatgttggacaggctggtctcaaactcctgacctcaggtgatccgcctgccttggcctcccaaagtgctgggattgcaggcataagccaccgagcccggc
i nomLeu3.chr25             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cerAty1.NW_012002954v1     13382922   0 +  21915920 C
e macNem1.NW_012015021v1      4859515   0 -  30496662 C
e macFas5.chr3              167234928   0 - 192294377 C
e rheMac8.chr3              160597958   0 - 185818997 C
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17974277   0 +  39895921 C
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e otoGar3.GL873528           24800626   0 -  38779656 C
e colAng1.NW_012120598v1      5149038   1 -  13750039 I
e manLeu1.NW_012103476v1      3387433   0 +   7543664 C
e chlSab2.chr2               19884486   0 -  90373283 C
e panPan2.chr21              22171054   0 +  46275980 C
e panTro5.chr21               8635532   0 +  33445071 C

a score=10747.000000
s hg38.chr21_GL383579v2_alt     13138 3 +    201197 TTG
s gorGor5.CYUI01015003v1      8153564 3 -  13858734 cTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198309 3 +  32716333 cTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597958 3 - 185818997 TTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167234928 3 - 192294377 TTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4859515 3 -  30496662 TTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13382922 3 +  21915920 TTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884486 3 -  90373283 TTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387433 3 +   7543664 TTG
i manLeu1.NW_012103476v1    C 0 C 0
s canFam3.chr31              17974277 3 +  39895921 TTG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24800626 0 -  38779656 C
e colAng1.NW_012120598v1      5149038 1 -  13750039 I
e panPan2.chr21              22171054 0 +  46275980 C
e panTro5.chr21               8635532 0 +  33445071 C

a score=32665.000000
s hg38.chr21_GL383579v2_alt     13141 7 +    201197 TACTTAC
s gorGor5.CYUI01015003v1      8153567 7 -  13858734 TACTTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198312 7 +  32716333 TACTTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597961 7 - 185818997 TACTTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167234931 7 - 192294377 TACTTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4859518 7 -  30496662 TACTTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13382925 7 +  21915920 TACTTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884489 7 -  90373283 TACTTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387436 7 +   7543664 TACTTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5149039 7 -  13750039 TACTCAC
i colAng1.NW_012120598v1    I 1 C 0
s canFam3.chr31              17974280 7 +  39895921 TACTTAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24800626 0 -  38779656 C
e panPan2.chr21              22171054 0 +  46275980 C
e panTro5.chr21               8635532 0 +  33445071 C

a score=41338.000000
s hg38.chr21_GL383579v2_alt     13148 9 +    201197 CTCTTAAAA
s gorGor5.CYUI01015003v1      8153574 9 -  13858734 CTCTTAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198319 9 +  32716333 CTCTTAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597968 9 - 185818997 CTCTTAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167234938 9 - 192294377 CTCTTAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4859525 9 -  30496662 CTCTTAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13382932 9 +  21915920 CTCTTAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884496 9 -  90373283 CTCTTAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387443 9 +   7543664 CTCTTAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5149046 9 -  13750039 CTCTTAAAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24800626 9 -  38779656 TAATTCAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17974287 9 +  39895921 AACTTAAAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e panPan2.chr21              22171054 0 +  46275980 C
e panTro5.chr21               8635532 0 +  33445071 C

a score=3863941.000000
s hg38.chr21_GL383579v2_alt     13157 590 +    201197  
s panTro5.chr21               8635532 590 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22171054 590 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8153583 589 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198328 591 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160597977 588 - 185818997  
i rheMac8.chr3              C 0 I 47
s macFas5.chr3              167234947 588 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4859534 588 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13382941 585 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19884505 585 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3387452 583 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5149055 587 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24800635 721 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17974296 592 +  39895921  
i canFam3.chr31             C 0 I 2
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=7098.000000
s hg38.chr21_GL383579v2_alt     13747 1 +    201197 T
s panTro5.chr21               8636122 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22171644 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154172 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198919 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167235535 1 - 192294377 t
i macFas5.chr3              C 0 I 18
s macNem1.NW_012015021v1      4860122 1 -  30496662 t
i macNem1.NW_012015021v1    C 0 I 46
s cerAty1.NW_012002954v1     13383526 1 +  21915920 t
i cerAty1.NW_012002954v1    C 0 I 46
s chlSab2.chr2               19885090 1 -  90373283 T
i chlSab2.chr2              C 0 I 46
s manLeu1.NW_012103476v1      3388035 1 +   7543664 t
i manLeu1.NW_012103476v1    C 0 I 46
s colAng1.NW_012120598v1      5149642 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 I 46
s otoGar3.GL873528           24801356 1 -  38779656 T
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17974890 1 +  39895921 T
i canFam3.chr31             I 2 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e rheMac8.chr3              160598565 47 - 185818997 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I

a score=7655.000000
s hg38.chr21_GL383579v2_alt     13748 5 +    201197 AGAGT
s panTro5.chr21               8636123 5 +  33445071 AGAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22171645 5 +  46275980 AGAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154173 5 -  13858734 AGAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198920 5 +  32716333 AGAGT
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167235554 5 - 192294377 ataat
i macFas5.chr3              I 18 I 23
s otoGar3.GL873528           24801357 5 -  38779656 ATCGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17974891 5 +  39895921 ATAGT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cerAty1.NW_012002954v1     13383527 46 +  21915920 I
e macNem1.NW_012015021v1      4860123 46 -  30496662 I
e rheMac8.chr3              160598565 47 - 185818997 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e colAng1.NW_012120598v1      5149643 46 -  13750039 I
e manLeu1.NW_012103476v1      3388036 46 +   7543664 I
e chlSab2.chr2               19885091 46 -  90373283 I

a score=214835.000000
s hg38.chr21_GL383579v2_alt     13753 35 +    201197 TAATTTTGATAAA--TTCTAG-GTATTACCTATTTTAT
s panTro5.chr21               8636128 35 +  33445071 TAATTTTGATAAA--TTCTAG-GTATTACCTATTTTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22171650 35 +  46275980 TAATTTTGATAAA--TTCTAG-GTATTACCTATTTTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154178 35 -  13858734 TAATTTTGATAAA--TTCTAG-GTATTACCTATTTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198925 35 +  32716333 TAATTTTGATAAA--TTCTAG-GTATTACCTATTTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160598612 35 - 185818997 taatttttaTAAA--TTCTTG-ATATTACCTATTTTAT
i rheMac8.chr3              I 47 C 0
s macFas5.chr3              167235582 35 - 192294377 taatttttaTAAA--TTCTTG-ATATTACCTATTTTAT
i macFas5.chr3              I 23 C 0
s macNem1.NW_012015021v1      4860169 35 -  30496662 taatttttaTAAA--TTCTTG-ATATTACCTATTTTAT
i macNem1.NW_012015021v1    I 46 C 0
s cerAty1.NW_012002954v1     13383573 35 +  21915920 taatttttaTAAA--TTCTTG-ATATTACCTATTTTAT
i cerAty1.NW_012002954v1    I 46 C 0
s chlSab2.chr2               19885137 35 -  90373283 TAATTTTTTAAAA--TTCTTG-ATATTACCTATTTTAT
i chlSab2.chr2              I 46 C 0
s manLeu1.NW_012103476v1      3388082 35 +   7543664 taatttttaTAAA--TTCTTG-ATATTACCTATTTTAT
i manLeu1.NW_012103476v1    I 46 C 0
s colAng1.NW_012120598v1      5149689 35 -  13750039 TAATTTTTATAAA--TTCTTG-ATATTACCTATTTTAT
i colAng1.NW_012120598v1    I 46 C 0
s otoGar3.GL873528           24801362 37 -  38779656 CAATTTTTTAAAATCTCCTAT-GTATTATCTATCTTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17974896 36 +  39895921 CAATTTTAGAAAC--CTACAGTGCATTAATTATCTTAT
i canFam3.chr31             C 0 I 16
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I

a score=1472719.000000
s hg38.chr21_GL383579v2_alt     13788 252 +    201197 GTAGCATAAGAAGAGTTTATATAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaattgggttttctcccacatcccaaaggtgtacactttaagtgaattggtatgtctacatcatcccaggaggagtgaatgt--------ctgtgtgtgtgtacctgagataagatgatgtcttgtccaatgctggtttccaccttgtgccctgagctgttgggagaggctcctgcgacctgtgaccctgaagca-------gaataagtggactgaataa
s panTro5.chr21               8636163 252 +  33445071 GTAGCATAAGAAGAGTCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaattgggttttctcccacatcccaaaggtgtacactttaagtgaattggtatgtctacatcatcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagataagatgatgtcttgtccaatgctggtttccaccttgtgccctgagctgtagggagaggctcctgcgacctgtgaccctgaagca-------gaataagtggactgaataa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22171685 252 +  46275980 GTAGCATAAGAAGAGTCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaattgggttttctcccacatcccaaaggtgtacactttaagtgaattggtatgtctacatcatcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagataagatgatgtcttgtccaatgctggtttccaccttgtgccctgagctgttgggagaggctcctgcgacctgtgaccctgaagca-------gaataagtggactgaataa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154213 252 -  13858734 GTAGCATAAGAAGAGTCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tttccaagtaattgggttttctcccacatcccaaaggtgtacactttaagtgaattggtatgtctacatcatcccagtaggagtgaatgt--------ctgtgagtgtgtacctgagataagatgatgtcttgtccaatgctggtttccaccttgtgccctgagctgttgggagaggctcctgcgacctgtgaccctgaatca-------gaataagtggactgaataa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9198960 259 +  32716333 GTAGCATAAGAAGAGTCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtagttgggttttctcccacatcccaaaggtgtaccctttaagtgaattggtatgtctacatcatcccagtaggagtaaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgctggtttccaacttgtgccctgagctgttgggataggctcctgcgaccagtgaccctgaagcagaataaggaataagtggattgaataa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160598647 249 - 185818997 GTAGCGTAAGAA---TCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaactgggttttctcccacatcccaatggtgtacactttaagtgaatttgtatgtctacatcgtcccagtaggagtgaatgt--------ctgtgtgtatgtacctgagatgagatgatatcttgtccaatgctggtttctaccttgtgtcctgagctgttgggataggcttctgcgacccgtgaccctgaagca-------gaataagtggattgaataa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167235617 249 - 192294377 GTAGCGTAAGAA---TCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaactgggttttctcccacatcccaatggtgtacactttaagtgaatttgtatgtctgcatcgtcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgctggtttccaccttgtgtcctgagctgttgggataggcttctgcgacccgtgaccctgaagca-------gaataagtggattgaataa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4860204 249 -  30496662 GTAGCGTAAGAA---TCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaactgggttttctcccacatcccagtggtgtacactttaagtgaatttgtatgtctacatcgtcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgctggtttctaccttgtgtcctgagctgttgggataggcttctgcgacccgtgaccctgaagca-------gaataagtggattgaataa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13383608 249 +  21915920 GTAGCATAAGAA---TCTATACAGCAGGTTCCCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaactgggttttctcccacatcccaatggtgtacactttaagtgaatttgtatgtctacatcgtcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgctggtttccaccttgtgtcctgagctgttgggataggcttctgcgacccgtgaccctgaagga-------gaataaatggattgaataa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19885172 249 -  90373283 GTAGCATAAGAA---TCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaattgggttttctcccacatcccaacggtgtacactttaagtgaatttgtatgtctacatcatcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgctggttcccaccttgtgtcctgagctgtttggataggctcctgcaacccatgaccctgaagca-------gaataagtggattgaataa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3388117 249 +   7543664 GTAGCATAAGAA---TCTATACAGCAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaattgggttttctcccacatcccaatggtgtacactttaagtgaatttgtatgtctacatcgtcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgctggtttccaccttgtgtcctgagctgttgggataggctcctgtgacccgtgaccctgaagga-------gaataaatggattgaataa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5149724 249 -  13750039 GTAGCATAAGAA---TCTATACAGTAGGTTCTCAAATA-------------------------------------------------------------------------------------------------------------------tctccaagtaattgagttttctcgcacatcccaatggtgtaaactttaagtgaatttgtatgtctacatcttcccagtaggagtgaatgt--------ctgtgtgtgtgtacctgagatgagatgatgtcttgtccaatgccggtttccaccttgtgtcctgagctgttgggataggctcctgcgacctgtgaccctgaagca-------gaataagtggattgaataa
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24801399 369 -  38779656 ATGGCATAATAATCTTCCATGTTTCATTTATTTAaatgacatcatttttctcaacatcctttcattataattttgatgagagaagaattaatttctggccagggccactggttggatggagtttgaatgttctcttcctgtttatgtggattttctctgagtcctttggtttccttccacattccaaagacacacacaccaggtgaattggaatgtccacaatgttctggtctgagtgagtgtgggtgtggttgtgtgagtgcacctgctatggaaagatgtcctg-----gactggtttccatcttgttccttgagctagtggaatagactctggtcaatggcaatcttgacctg-------gaattagcata-taaataa
i otoGar3.GL873528          C 0 I 1600
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17974932  16 +  39895921 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=2672315.000000
s hg38.chr21_GL383579v2_alt     14040 500 +    201197 agg-aatgatgcgtataaatgattgtaaaataaaaatttgtaaagtagattataattacacaagtgcactttaataaacaaggtggaatcaaagcacacagtgaacgcaccatgtttgtgattatttttgaattgagtgctggatggagatgctcctgataattttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcactgaacactgggtaaataattatcatacttgtttgtattaatctttcttatatatatatatagct--------cacatttattttacactttatattaggagggctggaggtatttatttagaagtttggagatgtttttgtgacaacaaacatgctgtaggatcttaactcttgtttatatctattaacct-atggtacaattggttttcttacacatcgttttgcttaaatttgtggtttcc-aaaaactatggacgatgttatgcgaggacttaa
s panTro5.chr21               8636415 508 +  33445071 agg-aatgatggatataaatgattgtaaaataaaaatttgtaaagtaggttataattacacaagtgcactttaataaacaaggtggaatcaaagcacacagtgaacgcaccatgtttgtgattatttttgaattgagtgctggaaggagatgctcctgataattttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcactgaacactgggtaaataattatcatacttgtttgtattaacctttcatatatatatatatatatatatatatcacatttattttacactttatattgggagggctggaggtatttatttagaagtttggagatgtttttgtgacaacaaacatgctgtaggatcttaactcttgtttatatctattaacct-atggtacaattggttttcttacacatcgttttgcttaaatttgtggtttcc-aaaaactatggacgatgttacacgaggacttaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22171937 506 +  46275980 agg-aatgatggatataaatgattgtaaaataaaaatttgtaaagtaggttataattacacaagtgcactttaataaacaaggtggaatcaaagcacacagtgaacgcaccatgtttgtgattatttttgaattgagtgctggaaggagatgctcctgataattttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcactgaacactgggtaaataattatcatacttgtttgtattaacctttcatatatatatatatatat--atatctcacatttattttacactttatattgggagggctggaggtatttatttagaagtttggagatgtttttgtgacaacaaacatgctgtaggatcttaactcttgtttatatctattaacct-atggtacaattggttttcttacacatcgttttgcttaaatttgtggtttcc-aaaaactatggacgatgttacacgaggacttaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154465 499 -  13858734 agg-aatgatggatataaatgattgtaaaataaaaatttgtaaagtagattataattacacaagtgcactttaataaacaaggtggaatcaaagcacacagtgaatgcaccatgtttgtgattatttttgaattgagtgctggaaggagatgctcctgataattttcattttccaaacacttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcactgaacactgggtcaataattatcatacttgtttgtattaatctttcttatatatacatatagct--------cacatttattttacactttatattgggagggctgga-gtatttatttagaagtttggagatgtttttgtgacaacaaacatgctgtaggatcttaactcttgtttatatctattaacct-atggtacaattggttttcttacacatcgttttgcttaaatttgtggtttcc-aaaaactatggacgatgttatgcgaggacttaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9199219 501 +  32716333 agg-aatgacggatataaatgattgtaaaataaaaatttgtaaagtagattataattacacaagaacactctaataaacaaggtggaatcaaagcacacagtgaacgcaccatgtttgtgattatttttgaattgagtgctggcaagagatgctcctgataattttcattttccaaacatttattcttggttttaacccaccaccact-aaaccacagtcactgactgattcactgaacactgggtaaataa-tatcatac-tgtttgta-taatcgtctttatatatatatatatat----atctcacattcattttacactttatattgggaaggctggaggtatttatttagaagtttggagatgtttttgtgacaacagacatgctgtaggatcttaactcttgtttctatatattaacct-atggtacaattggttttcttacacatcattttgcttaaatttgtggtttccaaaaaactatggacgatattatgcgaggacttaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160598896 501 - 185818997 aggccatgatggatacaaatgactgtaaaataaaaatttgtaaagtagattataagtacacgagtgcactctaataaacaaggtagaatcaaagcgcacagtgaacccaccgtgtttgtgattatttttgaattgagtgctggcaggagatgctcctgataattttcattttccaaacatttattcttggttttaacccacccccactaaaaccacagtcattgactgattcactgaacactgggtaaataattatcatacttgtttgtattaacctttcttaagtat--aaatagct--------cacattcattttacactttatattgggagggctggtggtatttatttaaaagtctggggatgtttttgtgaccacagacatgctgtaaggtcttaactcttgtttatatctattaacttaatggtaaaattggttttcttatatgtcattttgcttaaagctgtggtttccaaaaaactatggatgatgttaactgaggacttaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167235866 501 - 192294377 aggccatgatggatacaaatgactgtaaaataaaaatttgtaaagtagattataagtacacgagtgcactctaataaacaaggtagaatcaaagcgcacagtgaacccaccgcgtttgtgattatttttgaattgagtgctggcaggagatgctcctgataattttcattttccaaacatttattcttggttttaacccacccccactaaaaccacagtcattgactgattcactgaacactgggtaaataattatcatacttgtttgtattaacctttcttaagtat--aaatagct--------cacattcattttacactttatattgggagggctggtggtatttatttaaaagtctggggatgtttttgtgaccacagacatgctgtaaggtcttaactcttgtttatatctattaacttaatggtaaaattggttttcttatatgtcattttgcttaaagctgtggtttccaaaaaactatggatgatgttaactgaggacttaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4860453 501 -  30496662 aggccatgatggatacaaatgactgtaaaataaaaatttgtaaagtagattataagtacacgagagcactctaataaacaaggtagaatcaaagcgcacagtgaacccaccgcgtttgtgattatttttgaattgagtgctggcaggagatgctcctgataattttcattttccaaacatttattcttggttttaacccacccccactaaaaccacagtcattgactgattcactgaacactgggtaaataattatcatacttgtttgtattaacctttcttaagtat--aaatagct--------cacattcattttacactttatattgggagggctggtggtatttatttaaaagtttggggatgtttttgtgaccacagacatcctgtagggtcttaactcttgtttatatctattaacttaatggtaaaattggttttcttatatgtcattttgcttaaagctgtggtttccaaaaaactatggatgatgttaagtgaggacttaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13383857 499 +  21915920 aag-aatgatgggtataaatgattgtaaaataaaaatttgtaaagtagattataagtacagaagtgcaccctaataaacaaggtagaatcaaagcacacagtgaacccaccatgtttgtgattatttttgaactgagtactggcaggagacgctcctgataatcttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcaccgaacacggggtatataattatcatacttgtttgtattaatctttctcaagtat--atatagct--------cacatttattttacactttatattgggaggactggaggtatttatttagaggtttggggatgtttttgtgaccacagacatactgtagggtcttaactcttgtttatatctattaacct-atggtaaaattggttttcttatatgtcattttgcttaaagctgtggtttccaaaaaactatggatgatgttaagtgaggacttaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19885421 499 -  90373283 aag-aatgatgggtataaatgtttgtaaaataaaaatttgtaaagtagattataagtacacaagtgcaccctaataaacaaggtagaatcaaagcgcacagtgaacccaccatgtttgtgattatttttgaattgagtactggcaggagacgctcttgataattttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcaccaaacactgggtaaataattatcatacttgtttgtattaatctttcttaagaat--atataact--------catatttatcttacactttatattgggagggctggcggtatttatttagaagtttggggatgtttttgtgaccacagacatactgtagggtcttaactcttgtttatatctattaacct-atggtaaaattggttttcttatatgtcattttgcttaaagctgtgatttccaaaaaactatggatgatgttaagtgaggacttaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3388366 498 +   7543664 aag-aatgatgggtataaatgattgtaaaataaaaatttgtaaagtagattataagtacacaagtgcaccctaataaacaaggtagaatcaaagcacacagtgaaccca-catgtttgtgattatttttgaattgagtactggcaggagacgctcctgataattttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcaccgaacacagggtatataattatcatacttgtttgtattaatctttctcaagtat--atatagct--------cacatttattttacactttatattgggagaactggaggtatttatttagaagtttggggatgtttttgtgaccacagacatactgtagggtcttaactcttgtttatatctattaacct-atggtaaaattggttttcttatatgtctttttgcttaaagctgtggtttccaaaaaactatggatgatgttaagtgaggacttaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5149973 499 -  13750039 agg-aatgatggatataaatgattgtaaaataaaaatttgtaaagcagattataagtacacaagtgcaccctaataaacaaggtagaatcaaagcacacagtgaacccaccatgtttgtgattatttttgaattgagtgctggcaggagatgctcctgataattttcattttccaaacatttattcttggttttaacccaccaccactaaaaccacagtcactgactgattcaccgaacactgggtaaataattatcatacttgtttgtattaatctttcttaagtat--atatagct--------cacatttattttacactttatattgggaggactggaggtatttatttagaagtttggggatgtttttgtgaccatagacatactgtagcatcttaactcttgtttatatctattaacct-atggtaaaattggttttcgtatatgtcattttgctcaaagctgtggtttccaaaaaactatggatgatgttaagtgaggacttaa
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17974932  16 +  39895921 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e otoGar3.GL873528           24801768 1600 -  38779656 I

a score=36928.000000
s hg38.chr21_GL383579v2_alt     14540 6 +    201197 tgCATT
s panTro5.chr21               8636923 6 +  33445071 tgCATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22172443 6 +  46275980 tgCATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154964 6 -  13858734 tgCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9199720 6 +  32716333 tgCATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160599397 6 - 185818997 tgTATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167236367 6 - 192294377 tgTATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4860954 6 -  30496662 tgTATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13384356 6 +  21915920 tgTATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19885920 6 -  90373283 tgTATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3388864 6 +   7543664 tgTATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5150472 6 -  13750039 tgTATT
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17974948 6 +  39895921 TATATT
i canFam3.chr31             I 16 C 0
e dasNov3.JH578070            2251482 448 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24801768 1600 -  38779656 I

a score=509785.000000
s hg38.chr21_GL383579v2_alt     14546 78 +    201197 TCAACACTGCCTGGGTATAGATGTTGAAGTTGAGTGAGTGGGGATTATAGAAAAC---TAATACAAAAACTAT-AAATTCAG
s panTro5.chr21               8636929 78 +  33445071 TCAACACTGCCTGGGTATAGATGTTGAAGTTGAGTTAGTGGGGATTATAGAAAAC---TAATACAAAAACTAT-AAATTCAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22172449 78 +  46275980 TCAACACTGCCTGGGTATAGATGTTGAAGTTGAGTTAGTGGGGATTACAGAAAAC---TAATACAAAAACTAT-AAATTAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8154970 78 -  13858734 TCAACACTGCCTGGGTATAGATGTTGAAGTTGAGTGTGTGGGGATTATAGAAAAC---TAATACAAAAACTAT-AAATTCAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9199726 78 +  32716333 TCAACACTGCCTGGGTATAGATGTTGAAGTTGAGTGAGTGGGAATTATAGAAAAC---TAATACAAAAGCTAT-AAAGTCAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160599403 78 - 185818997 TCAACACTGCCTGGGTACAGATGTTGAAGTTGAGTGAGTGGGGATTATACAAAAC---TAATACAAAAGCTAT-AAATTCAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167236373 78 - 192294377 TCAACACTGCCTGGGTACAGATGTTGAAGTTGAGTGAGTGGGGATTATACAAAAC---TAATACAAAAGCTAT-AAATTCAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4860960 78 -  30496662 TCAACACTGCCTGGGTACAGATGTTGAAGTTGAGTGAGTGGGGATTATACAAAAC---TAATACAAAAGCTAT-AAATTCAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13384362 78 +  21915920 TCAACACTGCCTGGGTGCAGATGTTGAAGCTGAGTGAGTGGGGATTATACAAAAC---TAATACAAAAGCTAT-AAATTCAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19885926 78 -  90373283 TCAACACTGCCTGGGTACAGATGTTGAAGTTGAGTGAGTGGGGATTATACAAAAC---TAATACAAAAGCTAT-AAATTCAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3388870 78 +   7543664 TCAACACTGCCTGGGTGCAGATGTTGAAGTTGAGTGAGTGGGGATTATACAAAAC---TAATACAAAAGCTAT-AAATTCAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5150478 67 -  13750039 TCAACACTGCCTGGGTACAGATGTTGAAGTTGAGTGAGTGGGGATT--------------ATACAAAAGCTAT-AAATTCAG
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17974954 81 +  39895921 TCAACACAGCCTGAGTACAAATGTTGAAGGTGAGGAATTGAGAATTATGCAAAACTGGTAATAAAAGGTTTAT-AATTTCAG
i canFam3.chr31             C 0 I 11
s dasNov3.JH578070            2251930 82 +   3081153 TCAACACATCCTGAGAATGGTTGTTGGGGCTGAAGGTGATGAAATTATGCAAAACTGGTAATACAAGTCCTGTAAAATTCAG
i dasNov3.JH578070          I 448 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24801768 1600 -  38779656 I

a score=88423.000000
s hg38.chr21_GL383579v2_alt     14624 14 +    201197 TGTTCAACATAAAT
s panTro5.chr21               8637007 14 +  33445071 TGTTCAACATAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22172527 14 +  46275980 TGTTCAACATAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8155048 14 -  13858734 TGTTCAACATAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9199804 14 +  32716333 TGTTCAACATAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160599481 14 - 185818997 TGTTCAACATAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167236451 14 - 192294377 TGTTCAACATAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4861038 14 -  30496662 TGTTCAACATAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13384440 14 +  21915920 TGTTCAACATAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19886004 14 -  90373283 TATTCAACATAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3388948 14 +   7543664 TGTTCAACATAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5150545 14 -  13750039 TGTTCAACATAAAT
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2252012 14 +   3081153 GATTAAAAAAAAAT
i dasNov3.JH578070          C 0 I 10
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17975035 11 +  39895921 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24801768 1600 -  38779656 I

a score=3969569.000000
s hg38.chr21_GL383579v2_alt     14638 708 +    201197  
s panTro5.chr21               8637021 708 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22172541 708 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8155062 707 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9199818 707 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160599495 716 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167236465 716 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4861052 712 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13384454 708 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19886018 712 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3388962 708 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5150559 712 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2252026  10 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e canFam3.chr31              17975035  11 +  39895921 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I
e otoGar3.GL873528           24801768 1600 -  38779656 I

a score=57927.000000
s hg38.chr21_GL383579v2_alt     15346 11 +    201197 AAATCACCAGA
s panTro5.chr21               8637729 11 +  33445071 AAATCACCGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173249 11 +  46275980 AAATCACCGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8155769 11 -  13858734 AAATCACCGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9200525 11 +  32716333 AAATCACCGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160600211 11 - 185818997 AAGTCACCGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167237181 11 - 192294377 AAGTCACCGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4861764 11 -  30496662 AAGTCACCGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385162 11 +  21915920 AAGTCACCGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19886730 11 -  90373283 AAGTCACCAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3389670 11 +   7543664 AAGTCACCGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151271 10 -  13750039 AAGTCACCAG-
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17975046 11 +  39895921 AAAAAAACAGA
i canFam3.chr31             I 11 C 0
e dasNov3.JH578070            2252026 10 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I
e otoGar3.GL873528           24801768 1600 -  38779656 I

a score=7501.000000
s hg38.chr21_GL383579v2_alt     15357 1 +    201197 --A
s panTro5.chr21               8637740 1 +  33445071 --A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173260 1 +  46275980 --A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8155780 1 -  13858734 --A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9200536 1 +  32716333 --A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160600222 1 - 185818997 --A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167237192 1 - 192294377 --A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4861775 1 -  30496662 --A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385173 1 +  21915920 --A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19886741 1 -  90373283 --A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3389681 1 +   7543664 --A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151281 1 -  13750039 --A
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24803368 1 -  38779656 --a
i otoGar3.GL873528          I 1600 C 0
s canFam3.chr31              17975057 3 +  39895921 AAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2252026 10 +   3081153 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I

a score=1420661.000000
s hg38.chr21_GL383579v2_alt     15358 192 +    201197 AAA--TTGGATGTTATGTAACTTTT-AATTCACTTGCTAATTTTTTCTATAATGTATTTGTTATAAGTGATACAAAATCATCAAAAACATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAACGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTCTTAAAATAACAAATC
s panTro5.chr21               8637741 192 +  33445071 AAA--CTGGATGTTATGTAACTTTT-AATTCACTTGCTAATTTCTTCTATAATGTATTTGTTATAAGTGATACAAAATCATCAAAAATATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAACGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173261 192 +  46275980 AAA--CTGGATGTTATGTAACTTTT-AATTCACTTGCTAATTTCTTCTATAATGTATTTGTTATAAGTGATACAAAATCATCAAAAATATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAACGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8155781 192 -  13858734 AAA--CTGGATGTTATGTAACTTTT-AATTCACTTGCTAATTTTTTCTATAATGTATTTGTTATAAGTGATAGAAAATCATCAAAAATATGTTTGCCAGATTTGACTTCCTAGTCATTTTATTGTAAATATTCAGAAACGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9200537 193 +  32716333 AAA--CTGGATGTTATGTAACTTTTCAATTCACTTGCTAATTTTTTCTATAATGTATTTGTTACAAGTGATACAAAATCATCAAAAATATGTTTGCCAGATTTGACTTCCTGGTCATTTTACTGTAAATATTCCGAAACGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTCTTAAAATAGCAAATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160600223 193 - 185818997 AAA--CTGGATGCTATGTAACTTTTCAAGTCACTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAAGTATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167237193 193 - 192294377 AAA--CTGGATGCTATGTAACTTTTCAAGTCACTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAAGTATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4861776 193 -  30496662 AAA--CTGGATGCTATGTAACTTTTCAAGTCACTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAAGTATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385174 193 +  21915920 AAA--CTGGATGTGATGTAACTTTTCAAGTCACTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAAGTATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19886742 192 -  90373283 AAA--CTGAATGCTATGTAACTTTTCAAGTCATTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAAGTATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCA-GCGA-T-CATTCAACTTATTAAAATAACAAATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3389682 193 +   7543664 AAA--CTGGATGTTATGTAACTTTTCAAGTCACTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAAGTATGTTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCATGCAA-T-CATTCAACTTATTAAAATAACAAATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151282 193 -  13750039 AGA--CTGGATGCTATGTAACTTTTCAAGTCACTTGCTAATTTTTTCTATAATTTATTTGTTATAAGTGATACAAAATCATCAAAACTATGCTTGCCAGATTTGACTTCCTGGTCATTTTATTGTAAATATTCAGAAATGATTTCCCTGTTTACTAAATCTCAGGCAA-T-CATTCAACTTATTAAAATAACAAATC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24803369 189 -  38779656 aaa--atataagttttataGTTTTTCAGATCATT-----ATTTTTTCCATAATGTATTTGTTATAAATGGTACAAAACCATCTTAGTTATTTCTGATGGATTTTGGTTCTTATTTATTTCATTGTAAGTATTCAGAAACAATTTCCTTATTTATTAAATCACATGCAATT-TATTAAGCTCATTCGGGGAACAGAtt
i otoGar3.GL873528          C 0 I 275
s canFam3.chr31              17975060 195 +  39895921 AAACCCTGTATCCTATGTAATTTTGCAAGTCATCTGCT-TTTTGTAATATAATTTATTTGTTACAAATGATACAAAACCATCATAGCTGTGCTTGCCAGATTTGAGTTCCTGGTCATTTCCTTGTGAGCATTCTGAAACAGTATTTATATTTATTAAATATCATGTGA-TCCATTCAGCTTACTCAAACAGCTGGTA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252036 187 +   3081153 AAA--CTGTTTTCTTTATAACTTTGCCAGTCTCCTGCTAATTTGTCCTACAATTTATTTGTTATAAATAATGAAAAATGATAACAGACATGTTGATCAGA-TTGAGTCCTTGGTCATTCACTT------ATTCTGAAGTTATTTTCCTAATTATAAAATTCCATGTAA-TACATTCAATTTATTCAAATAACAAATT
i dasNov3.JH578070          I 10 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=400524.000000
s hg38.chr21_GL383579v2_alt     15550 87 +    201197 TTGAACACATGCAATATTGT-----AAACATTTGGTATGTTACTAAGGACTTATC--AAATCTTAAGGCATACAGAGAACAG--------ATTTCATTAGTG
s panTro5.chr21               8637933 87 +  33445071 TTGAACACATGCAATATTGT-----AAACATTTGGTATGTTACTAAGGACTTATC--AAATCTTAAGGCATACAGAGAACAG--------ATTTCATTAGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173453 87 +  46275980 TTGAACACATGCAATATTGT-----AAACATTTGGTATGTTACTAAGGACTTATC--AAATCTTAAGGCATACAGAGAACAG--------ATTTCATTAGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8155973 87 -  13858734 TTGAACACATGCAATATTGT-----AAACATTTGGTATGTTACTAAGGACTTATC--AAATCTTAAGGCATACAGAGAACAG--------ATTTCATTAGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9200730 87 +  32716333 TTGAACACATGCAATATTGT-----AAACATTTGGTATGTTACTAAGGACATACC--AAATCTTAAGGCATACAGAGAACAT--------ATTTCATTAGTG
i nomLeu3.chr25             C 0 I 1395
s rheMac8.chr3              160600416 70 - 185818997 TTGAATGCATGCAATATGGT-----AAACATTTTGTATGTTA-------------------CTTAGGGCATACAGACAGCAG--------ATTTCATTAGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167237386 70 - 192294377 TTGAATGCATGCAATATGGT-----AAACATTTTGTATGTTA-------------------CTTAGGGCATACAGACAGCAG--------ATTTCATTAGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4861969 70 -  30496662 TTGAACGCATGCAATATGGT-----AAACATTTTGTATGTTA-------------------CTTAGGGCATACAGACAGCAG--------ATTTCATTAGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385367 70 +  21915920 TTGAACGCATGCAATATGGT-----AAACATTTTGTATGTTA-------------------CTTAGGGCATGCAGACAGCAG--------ATTTCATTAGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19886934 70 -  90373283 TTGAACGCATGCAATATGGT-----AAACATTTTGTATGTTA-------------------CTTAGGGCATACAGACAACAG--------ATTTCATTAGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3389875 70 +   7543664 TTGAATGCATGCAATATGGT-----AAACATTTTGTATGTTA-------------------CTTAGGGCATACAGACAGCAG--------ATTTCATTAGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151475 70 -  13750039 TTGGACGCATACAATATGGT-----AAACACTTTGTATGTTA-------------------CTTAGGGCACACAGACAGCAA--------ATTTCATTAGCG
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24803833 77 -  38779656 TTGAACACATGTAATGTTGT-----AAGTTCTTCATAAG-TA-------------------CTAAGGAGAGTCAAAAAACAGAGAATATAACTTCAAAAATG
i otoGar3.GL873528          I 275 C 0
s canFam3.chr31              17975255 90 +  39895921 TTGAGCATGTACAATGTTGGTACTAAAGCATTTGGTAGG-TACTAAGGATAATCA--AAAGTTTAAGACACAGAAA-AACAG--------ACTTCATTAGTG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252223 86 +   3081153 TGAGACACATAAATTGCTAC-----AGGCATTTGGAAGG-TACTGGGTATATAACAAAAAGCTTAAGA-ACACAAA-ATCAT--------ATTTCATTAGTG
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I

a score=575071.000000
s hg38.chr21_GL383579v2_alt     15637 86 +    201197 GCAGAGAAAGAAATACAAAAAAA-TTAAGCAAAACTTGACAATGTAGGAAACCCAGATAATATCCTTTATCATCACTAGTCCAAAAA
s panTro5.chr21               8638020 87 +  33445071 GCAGAGAAAGAAATACAAAAAAAATTAAGCAAAACTTGACAATGTAGGAAACCCAGATAATATCCTTTATCATCACTAGTCCAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173540 87 +  46275980 GCAGAGAAAGAAATACAAAAAAAATTAAGCAAAACTTGACAATGTAGGAAACCCAGATAATATCCTTTATCATCACTAGTCCAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156060 86 -  13858734 GCAGAGAAAGAAATACAAAAAAA-TTAAGCAAAACTTGACAATGTAGGAAACCCAGATAATATCCTTTATCATCACTAGTCCAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202212 86 +  32716333 GCAGAGAAAGAAATAGAAAAAAA-GTAAGCAAAACTTGATAATGTAGGAAACCCAGATAATATCGTTTATCATTACTAGTCCAAAAA
i nomLeu3.chr25             I 1395 C 0
s rheMac8.chr3              160600486 86 - 185818997 GCAGAGAAAGAAATAGAATAAAA-GGGAACAAAACTTGACAATGCAGGAAACCCAGATTATATCCTTTATAATCACTAGTCCAAAAA
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167237456 86 - 192294377 GCAGAGAAAGAAATAGAATAAAA-GGGAACAAAACTTGACAATGCAGGAAACCCAGATTATATCCTTTATAATCACTAGTCCAAAAA
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4862039 86 -  30496662 GCAGAGAAAGAAATAGAATAAAA-GGGAACAAAACTTGACAATGTAGGAAACCCAGATTATATCCTTTATAATCACTAGTCCAAAAA
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13385437 86 +  21915920 GCAGAGAAAGAAATAGAATAAAA-GGAAGCAAAACTTGACAATGTAGGAAACCCAGATTATACCCTTTATCATCACTAGTCCAAAAA
i cerAty1.NW_012002954v1    C 0 I 22
s chlSab2.chr2               19887004 86 -  90373283 GCAGAGAAAGAAATATAATAAAA-GGAAGCAAAACTTGACAATGTAGGAAACCCAGATTACATCCTTTATCATCACTAGTTCAAAAA
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3389945 86 +   7543664 GCAGAGAAAGAAATAGAATAAAA-GGGAACAAAACTTGACAATGCAGGAAACCCAGATTATATCCTTTATAATCACTAGTCCAAAAA
i manLeu1.NW_012103476v1    C 0 I 1
s colAng1.NW_012120598v1      5151545 86 -  13750039 GCAGAGAAAGAAACAGAATAAAA-GGAAGCAAAACTTGACAATGTAGGAAACCCAGATTATAACCTTTATCATCACTAGTCCAAAAA
i colAng1.NW_012120598v1    C 0 I 1
s otoGar3.GL873528           24803910 84 -  38779656 GCAGAGAAGGAAAGAGAACAAA--GTAAGCAAAACTTCACAGTTTA-GCCACCTAAATTACATTCTTGATCTTTACTGGTTCAAAAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975345 84 +  39895921 GAAAAGAAGGAAAGAGAAAAAA--TTAAG-AAAACCTTAAATTATAGTAAATACAGATTATAATTTTCATCATTATTCATCCAAAAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252309 80 +   3081153 GCTGAGAATGAAATAGAAAATAA--TAAGCAAAACCTTACAATTCAGAAAACTTAG-----AATCTTGGTAATTATTAGTCCCAAAA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I

a score=19254.000000
s hg38.chr21_GL383579v2_alt     15723 5 +    201197 CATCT
s panTro5.chr21               8638107 5 +  33445071 CATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173627 5 +  46275980 CATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156146 5 -  13858734 CATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202298 5 +  32716333 TGTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160600573 5 - 185818997 TGTCC
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167237543 5 - 192294377 TGTCC
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4862126 5 -  30496662 TGTCC
i macNem1.NW_012015021v1    I 1 C 0
s chlSab2.chr2               19887091 5 -  90373283 TGTCC
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3390032 5 +   7543664 TGTCC
i manLeu1.NW_012103476v1    I 1 C 0
s colAng1.NW_012120598v1      5151632 5 -  13750039 TGTCC
i colAng1.NW_012120598v1    I 1 C 0
s otoGar3.GL873528           24803994 4 -  38779656 -CTCT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975429 4 +  39895921 -TTCT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252389 5 +   3081153 TGCCT
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13385523 22 +  21915920 I
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I
e saiBol1.JH378168            8633609 37 +  13128814 I

a score=721135.000000
s hg38.chr21_GL383579v2_alt     15728  99 +    201197 GAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAAAATCAGTTAAATGTGT-AAAAAATAAAGA---ATTTTCAATAAGACCAGTTTATGTT
s panTro5.chr21               8638112  99 +  33445071 GAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAAAATCAGTTAAATGTGT-AAAAAATAAAGA---ATTTTCAATAAGACCAGTTTATGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173632  99 +  46275980 GAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAAAATCAGTTAAATGTGT-AAAAAATAAAGA---ATTTTCAATAAGACCAGTTTATGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156151  99 -  13858734 GAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAAAATCAGTTAAATGTGT-AAAAAATAAAGA---ATTTTCAATAAGACCAGTTTATGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202303  99 +  32716333 GAATC----TAAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAAAATCAGTTAAATGTGT-AAAAAATAAAGA---ATTTTCAGTAAGACCAGTTTATGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160600578  99 - 185818997 AAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAGAATCAGTTAAATGTGT-AAAAAACACAGA---ATTTTCAATATGACCAGTTTATGTT
i rheMac8.chr3              C 0 I 342
s macFas5.chr3              167237548  99 - 192294377 AAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAGAATCAGTTAAATGTGT-AAAAAACACAGA---ATTTTCAATATGACCAGTTTATGTT
i macFas5.chr3              C 0 I 342
s macNem1.NW_012015021v1      4862131  99 -  30496662 AAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAGAATCAGTTAAATGTGT-AAAAAATAGAGA---ATTTTCAATATGACCAGTTTATGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385545  99 +  21915920 AAATC----TGCAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAGAATCAGTTAAATGTGG-AAAAAATAGAGA---ATTTTCAATATGACCAGTTTATATT
i cerAty1.NW_012002954v1    I 22 C 0
s chlSab2.chr2               19887096  99 -  90373283 ATATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAGAATCAGTTAAATGTGT-AAAAAACAGAGA---ATTTTCAATATGACCAGTTTATGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3390037 100 +   7543664 AAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTAGATGTGGAAAATCAGTTAAATGTGTAAAAAAATAGAGA---ATTTTCAATATGACCAGTTTATGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151637  99 -  13750039 AAATC----TGAAGATTCCATTG---AAAATCTTTT-ATTAATTACATGTGGAGAATCAGTTAAATGTGT-GAAAAACAGAGA---ATTTTCAATATGACCAGTTTATGTT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24803998 104 -  38779656 GAATCTATTTGAAGTTTCCGTTA---AAAATCTTTTAAATAACTAAATGTGAAGAATCTGCCAACTATGT-AGGAAATAGGTA---ATTTTCAATAAGACTTGGTCATGTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975433 107 +  39895921 AAATCTGTTTGAAGTTTTCATTGTATAAAAATTTTG-CTTACTTAAATATGAAGAAACAGTTAACTAT---AGCAAACAGAGCATTATTTTTAGAAAGAATGGGTCATGTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252394 103 +   3081153 GAATCTGCTTGAAGATTCCATTG---AAAATCTTTT-GTTAATTAAATGTGCAGTACAATTTAAATGTGC-AGAAAATAGGGC---TTTTTCAGAAAGGCGGGTTCATGTT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=839376.000000
s hg38.chr21_GL383579v2_alt     15827 126 +    201197 GCTAAACCTATTCTTGTAGGTGAGTTTAGTTCTCCTCGGAGAAATGAGCTGAGGGCCCAAAATTGTAACTCAGTGAATTACAAAATTGTTATTGTTTCCCAAAGTATTATAGTTTCACATTTTCAC
s panTro5.chr21               8638211 126 +  33445071 GCTAAACCTATTCTTGTAGGTGAATTTAGTTCTCCTCGGAAAAATGAGCTGAGGGCCCAAAATTGTAACTCAGTGAATTACAAAATTGTTATTGTTTCCCAAAGTATTATAGTTTCACATTTTCAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173731 126 +  46275980 GCTAAACCTATTCTTGTAGGTGAATTTAGTTCTCCTCGGAAAAATGAGCTGAGGGCCCAAAATTGTAACTCAGTGAATTACAAAATTGTTATTGTTTCCCAAAGTATTATAGTTTCACATTTTCAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156250 126 -  13858734 GCCAAACCTATTCTTGTAGGTGAATTTAGTTCTCCTTGGAGAAATGAGCTGAGGGCCCAAAATTGTAACTCAGTGAATTACAAAATTATTATTGTTTCCCAAAGTATTAAAGTTTCACATTTTCAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202402 126 +  32716333 GCTAAACCTATTCTTGTAGGTGAGTTTAGTTCTCCTCGGAGAAATGAGCTGAGGGCCCGAAATTGTAACTCAGTGAATTACAAAATTGTTATTGTTTCCCAAAGTATTATAGTTTCACATTTTCAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160601019 126 - 185818997 GCTAAACCTATTCTTATAGCTGAGTTTAGTTCTTCTTGGAGAAATGACCTGCGGGCCCAAAATTGTATCTCAGTGAACTACAAAATTGTTATTGTTGCCCAAAGTGTTATAGTATCACATTTTCAT
i rheMac8.chr3              I 342 C 0
s macFas5.chr3              167237989 126 - 192294377 GCTAAACCTATTCTTATAGCTGAGTTTAGTTCTTCTTGGAGAAATGACCTGCGGGCCCAAAATTGTATCTCAGTGAACTACAAAATTGTTATTGTTGCCCAAAGTGTTATAGTATCACATTTTCAT
i macFas5.chr3              I 342 C 0
s macNem1.NW_012015021v1      4862230 126 -  30496662 GCTAAACCTATTCTTATAGCTGAGTTTAGTTCTTCTTGGAGAAATGACCTGAGGGCCCAAAATTGTATCTCAGTGAATTACAAAATTGTTATTGTTGCCCAAAGTGTTATAGTATCACATTTTCAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385644 126 +  21915920 GCTAAACCTATTCTTATAGCTGAGTTTAGTTCTCCTTGGAGAAATGACCTGAGAGCCCAAAATCGTATCTCAGTGAACTACAAAATTGTTATTGTTGCCCAAAGTGTTATAGTATCACATTTTCAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19887195 126 -  90373283 GCTAAATCTATTCTTGTAACTGAATTTAGTTCTTCTTGGAGAAATGACCTGAGGGCCTAAAATTGTATCTCAGTGAACTACAAAATTGTTATTGTTGCCCAAAGTGTAATAGTATCACATTTTCAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3390137 126 +   7543664 GCTAAACCTATTCTTATAGCTGAGTTTAGTTCTTCTTGGAGAAATGACCTGAGGGCCCAAAATTGTATCTCAGTGAACTACAAAATTGTTATTGTTGCCCAAAGTGTTATAGTATCACATTTTCAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151736 126 -  13750039 GCTAAACCTATTCTTATAGCTGAGTTTAGTTCTCCTTGGAGAAATGACCTGAGGGCCCAAAATTGTATCTCAGTGAACTACAAAATTGTTATTGTTCCCCAAAGTGTTATAGTATCACATTTTCAT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24804102 125 -  38779656 GCTAAATATATTTTTGTAGCTGAGATTAACTCTCCTTACAGAACTGAGTGCAAGGCTCAACACTATAACTCGCTAAGCTA-AAATTTCTTATTATCTCTCAAAATATTATGTTTTCATATCTTCAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975540 113 +  39895921 GTTAAACCTATTCTTGTCATCTGCTTGATTTTTACT-------------ATAGGTCTCAACATTGTTACTCATTGAACTGAAAAATTCTTACATACTCTCAAATTATTATGGTTTCACATTTTCTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252497 100 +   3081153 GCTAAACCTG-TCTTGTCAGT-----------------------TGACTGGAGGATCTGACAT--TAGCTCACTGAACTAAAACATTCTAATTATTTCTCAAAATGTTTTGGGTTCACATTTTCAT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707  90 +  50472720 I
e saiBol1.JH378168            8633609  37 +  13128814 I

a score=238938.000000
s hg38.chr21_GL383579v2_alt     15953 38 +    201197 GTTAAAATT---TCTTCTTTTTGAAGATA-------------T--T-----------TGTTCCCTGT
s panTro5.chr21               8638337 40 +  33445071 ATTAAAATT---TCTTCTTTTTGAAGATA-------------TATT-----------TGTTCCCTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173857 40 +  46275980 ATTAAAATT---TCTTCTTTTTGAAGATA-------------TATT-----------TGTTCCCTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156376 38 -  13858734 TTTAGAATT---TCTTCTTTTTGGAGATA-------------T--T-----------TGTTCCCTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202528 38 +  32716333 GTTAAAATT---TCTTCTTTTTGAAGATA-------------T--T-----------TGTTCCCTGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160601145 38 - 185818997 GTTAAAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167238115 38 - 192294377 GTTAAAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4862356 38 -  30496662 GTTAAAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385770 38 +  21915920 GTTACAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19887321 38 -  90373283 GTTAAAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3390263 38 +   7543664 GTTAAAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151862 38 -  13750039 GTTAAAATT---TCTTCTTTTGGAAGATA-------------T--T-----------TGTTCCCTGT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8633646 38 +  13128814 gcTACATTT---TCTTTTTTTTTAAAGTA-------------T--C-----------TGCTACAGGC
i saiBol1.JH378168          I 37 I 11
s otoGar3.GL873528           24804227 49 -  38779656 --GAAAATT---TGTTTCTTTTTAAGGCAGGCATTCCTAACTT--T-----------TAATCATTGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975653 52 +  39895921 GGAAACATTTCCTCTTCTTTTTAAAGACA-------------T--TGCTGATCTTTATTTTCCCCAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252597 50 +   3081153 GCAGGCGTTTCCTCTTCTTTTTAAAGGCA-------------T--TGCTGATCTT--CATTCTCTTT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I
e calJac3.chr21              26427707 90 +  50472720 I

a score=254889.000000
s hg38.chr21_GL383579v2_alt     15991 32 +    201197 TACCTCTTAAATGTTCTATTTATATCACTCTC
s panTro5.chr21               8638377 32 +  33445071 TACCTCTTAAATGTTCTATTTATATCACTCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173897 32 +  46275980 TACCTCTTAAATGTTCTATTTATATCACTCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156414 32 -  13858734 TACCTCTTAAATGTTCTATTTATATCACTCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202566 32 +  32716333 TACCTCTTAAATGTTCTATTTACATCACTCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160601183 32 - 185818997 TACCTCTTAAATGTTCTATTAACATGACTCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167238153 32 - 192294377 TACCTCTTAAATGTTCTATTAACATGACTCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4862394 32 -  30496662 TACCTCTTAAATGTTCTATTAACATGACTCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385808 32 +  21915920 TACCTCTTAAATGTTCTATTAATATGACTCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19887359 32 -  90373283 TACCTCTTAAATGTTCTATTAATATGACTCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3390301 32 +   7543664 TACCTCTTAAATGTTCTATTAACGTGACTCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151900 32 -  13750039 TACCTCTTAAATGTTCTATTAATATGACTCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26427797 20 +  50472720 TGTCTCTTTGGTATTCTACT------------
i calJac3.chr21             I 90 C 0
s saiBol1.JH378168            8633695 20 +  13128814 TGTCTCTTTGGTATTCTACT------------
i saiBol1.JH378168          I 11 C 0
s otoGar3.GL873528           24804276 32 -  38779656 TAACTCTTAAGTGTTCTATTAATATTACTCTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975705 32 +  39895921 TAACTCTTGAATGTTCTATCAATATTAGTCCC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252647 32 +   3081153 TACCAATTATGTGTTCCATTAATATTACTTTC
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13855784 165 -  14377064 I
e aotNan1.NW_018487195v1      9089852 230 -   9889416 I

a score=7490205.000000
s hg38.chr21_GL383579v2_alt     16023 660 +    201197  
s panTro5.chr21               8638409 663 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22173929 658 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8156446 662 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9202598 661 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160601215 666 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167238185 666 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4862426 666 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13385840 666 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19887391 657 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3390333 666 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5151932 664 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26427817 664 +  50472720  
i calJac3.chr21             C 0 I 1094
s saiBol1.JH378168            8633715 664 +  13128814  
i saiBol1.JH378168          C 0 I 789
s cebCap1.NW_016107322v1     13855949 664 -  14377064  
i cebCap1.NW_016107322v1    I 165 I 788
s aotNan1.NW_018487195v1      9090082 664 -   9889416  
i aotNan1.NW_018487195v1    I 230 I 802
s otoGar3.GL873528           24804308 603 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17975737 653 +  39895921  
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2252679 649 +   3081153  
i dasNov3.JH578070          C 0 C 0

a score=562566.000000
s hg38.chr21_GL383579v2_alt     16683 87 +    201197 AAGAAT------TACCTGATAGACTG----GTGAGCAAAACAGACATATAATATTATAAACCATAGCTACATT-AGCAGCTTCTAAGATTTCCTTTAA
s panTro5.chr21               8639072 87 +  33445071 AAGAAT------TATCTGATAGACTG----GTGAGCAAAACAGACATATAATATTGTAAACCATAGCTACATT-AGCAGCTTCTAAGATTTCCTTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22174587 87 +  46275980 AAGAAT------TATCTGATAGACTG----GTGAGCAAAACAGACATATAATATTGTAAACCATAGCTACATT-AGCAGCTTCTAAGATTTCCTTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157108 87 -  13858734 AAGAAT------TATCTGATAGACTG----GTGAGCAAAACAGACATATAATATTATAAACCATAGCTACATT-AGCAGCTTCTAAGATTTCCTTTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203259 87 +  32716333 AAGAAT------TATCTGTTAGACTG----GTGAGCAAAACAGACATATAATATTATAAACCTCGGCTACGTT-AGCAGCTTCTAAGATTTCCTTTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160601881 87 - 185818997 AAGGAT------TATCTGATAGACTG----GTGAGCAAAACAGACATACAATATTAGAAACCATAGCTACGTT-TGCAGCTGCTAAGATTTCCTTTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167238851 87 - 192294377 AAGGAT------TATCTGATAGACTG----GTGAGCAAAACAGACATACAATATTAGAAACCATAGCTACGTT-TGCAGCTGCTAAGATTTCCTTTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863092 87 -  30496662 AAGGAT------TATCTGATAGACTG----GTGAGCAAAACAGACATACAATATTAGAAACCATAGCTACATT-TGCAGCTGCTAAGATTTCCTTTAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13386506 87 +  21915920 AAGGAT------TATCTGATAGACTG----GTGAGCAAAATAGACATACAATATTAGAAACCATAGCTACGTT-TGCAGCTGCTAAGATTTCCTTTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888048 87 -  90373283 AAGGAT------TATCTGATAGACTG----GTGAGCAAAACAGACATACAATATTAGAAACCATGGCTACATT-TGCAGCTGCTAAGATTTCCTTTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3390999 87 +   7543664 AAGGAT------TATCTGATAGACTG----GTGAGCAAAACAGACATACAATATTAGAAACCATAGCTACGTT-TGCAGCTGCTAAGATTTCCTTTAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5152596 86 -  13750039 -AGGAT------TATCTGATAGACTG----GTGAGCAAAACAGACATACAATATTAGAAACCATAGCTAGGTT-TGCAGCTGCTAAGATTTCCTTTAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24804911 82 -  38779656 TAGCAT------TATCTGGTAGATTG----GCAAGCAAAA---AAATACAACACCAT-GACAAATGTGACATT--GCAGTTTCCAAAATTTTCTGTAA
i otoGar3.GL873528          C 0 I 389
s canFam3.chr31              17976390 77 +  39895921 ACAGGT------TATCTGGTAGATCT----ACAATCAAACCAAGC-----------TGAGACACAGCTACTTTTTGCAGCTTTCAAGATTTTCTTTAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2253328 97 +   3081153 AAGAATGACATGTATGTAATAACTTATATCATGTGATATTATAATATACAATATCAAAATCTACAACCACTTT-TACATCTTCCAAGATTTTCTTCCA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I

a score=495341.000000
s hg38.chr21_GL383579v2_alt     16770  73 +    201197 AGGTAAATGGGTTTTGCATCTCCGATATAAACTCCCTAGAGAACTACC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
s panTro5.chr21               8639159  73 +  33445071 AGGTAAGTGGGTTTTGCATCTCCGATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22174674  73 +  46275980 AGGTAAGTGGGTTTTGCATCTCCGATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157195  73 -  13858734 AGGTAAATGGGTTTTGCATCTCCGATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203346  72 +  32716333 AGGTAAAT-GGTTTCACATCTCCGATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160601968  73 - 185818997 AGGTAAATGGGTTTCTCATCTCCCATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167238938  73 - 192294377 AGGTAAATGGGTTTCTCATCTCCCATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863179  73 -  30496662 AGGTAAATGGGTTTCTCATCTCCCATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13386593  73 +  21915920 AGGTAAATGGGTTTCTCATCTCCTATATAAACTCCCTAGAGAACTAtc-----atatttaaatttt--------------------------------------tatattttataa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888135  73 -  90373283 AGGTAAATGGGTTTCTCATCTCCCATATAAACTCCCTAGAGAACTATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391086  73 +   7543664 AGGTAAATGGGTTTCTCATCTCCCATATAAACTCCCTAGAGAACTAtc-----atatttaaatttt--------------------------------------tatattttataa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5152682  73 -  13750039 AGGTAAATGGGTTTCTCATCTCCCATATAAATTCCCTAGAGAAATATC-----ATATTTAAATTTT--------------------------------------TATATTTTATAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24805382  73 -  38779656 AGAGAGATAAATTCTTTATCTCTCATATAAGCTACTCACAGACCTATC-----ATATTTACATTTT--------------------------------------TATATTGTATAA
i otoGar3.GL873528          I 389 C 0
s canFam3.chr31              17976467  73 +  39895921 GGGCAAATCATTTTCCCATTTCCTATTCGCACTCCTAGTGCAACTATC-----ATATTTACATGTT--------------------------------------TATATTTCATGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2253425 112 +   3081153 GTGATAATAGATTCCTTACCATCCATATAAG----TAAAGGAAATATCTGGCTTTGTTTAGAGTTTGGCTTGGCAGCCAGGGATGCCTTTGCCTGATGTCACTCTATATTCTTTGA
i dasNov3.JH578070          C 0 I 123
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I

a score=215063.000000
s hg38.chr21_GL383579v2_alt     16843 35 +    201197 AATGCTATGTCAAATTTCAATTT-AACAAGATTTTT-
s panTro5.chr21               8639232 36 +  33445071 AATGCTATGTCAAATTTCAATTT-AACAAGATTTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22174747 36 +  46275980 AATGCTATGTCAAATTTCAATTT-AACAAGATTTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157268 35 -  13858734 AATGCTATGTCAAATTTCAATTT-AACAAGATTTTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203418 35 +  32716333 AATGCTATGTCAAATTTCAATTT-AACAAGATTTTT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160602041 35 - 185818997 ATTGCTACGTCAAATTTCAATTT-AACAAGATTTTT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167239011 35 - 192294377 ATTGCTACGTCAAATTTCAATTT-AACAAGATTTTT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863252 35 -  30496662 ATTGCTACGTCAAATTTCAATTT-AACAAGATTTTT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13386666 35 +  21915920 attgctatgtcaaatttcaattt-AACAAGATTTTT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888208 35 -  90373283 ATTGCTATGTCACATTTCAATTT-AACAAGATTTTT-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391159 35 +   7543664 attgctatgtcaaatttcaattt-AACAAGATTTTT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5152755 35 -  13750039 AATGCTATGTCAAATTTCAATTT-AACCAGATTTTT-
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24805455 37 -  38779656 AATGCTATTTCAAATTTCTATGTAAACTAGATTTTTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17976540 34 +  39895921 AACACTATAACGAATTCCTGCTT-AA-ACTATTTTC-
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2253537 123 +   3081153 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I

a score=2442129.000000
s hg38.chr21_GL383579v2_alt     16878 360 +    201197 AATACACCTCACGGAATATTTTACTCTAGTGACGCCAATAAATAGCAATACGACCCTTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTACTTTTTTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTGGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATTTCCCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTTTGGAATAAGTGTACCACTTACTCCAAATAAATCAATCAAGTTATGCTTACTTGAATGTAAATGGTCATTTACATTTACCCGTAGCTTAACTTCTATCATA
s panTro5.chr21               8639268 360 +  33445071 AATACATCTCACGGAATATTTTACTCTAGTGACGCCAATAAATAGCAATACGACCCTTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTTTATCTACTTTTTTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTGGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATTTCCCCAA--T--TCTAGTTTAAATTTTACTATTCACTCTCTTTCTTTGGAATAAGTGTACCACTTATTCCAAATAAATCAATCAAGTTATGCTTACTTGAATGTAAATGGTCATTTACATTTACCCGTAGCTTAACTTCTATCATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22174783 360 +  46275980 AATACATCTCACAGAATATTTTACTCTAGTGACGCCAATAAATAGCAATACGACCCTTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTTTATCTACTTTTTTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTGGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATTTCGCCAA--T--TCTAGTTTAAATTTTACTATTCACTCTCTTTCTTTGGAATAAGTGTACCACTTATTCCAAATAAATCAATCAAGTTATGCTTACTTGAATGTAAATGGTCATTTACATTTACCCGTAGCTTAACTTCTATCATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157303 358 -  13858734 AATACACCTCACAGAATATTTTACTCTAGTGACGCCAATAAATAGCAATACGACCCTCTGAATGAAGA-A-GA-TGTTTTTCCACTTAAGCTTTCTACTTGTATC-ACTTTTTTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTGGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATTTCCCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTTTGGAATAAGTGTACCACTTATTCCAAATAAATCAATCAAGTTATGCTTACTTGAATGTAAATGGTCATTTACATTTACCCGTAGCTTAACTTCTATCATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203453 360 +  32716333 AATACACCTCACAGAATATTTTACACTAGTGACGCCAATAAATAGCAATACGACCATTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTACTTTTTTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAGTAGTCTTCAAGGGAAAGTTGAAACTTCTAAATTAGGGCTTGTGGTGAAT-AGTGATGTGACATCTCCCCAG--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTTTGGAATAAGTGCACCACTTATTCCAAATAAATCAATCAAGTTATGTTTACTTGAATGTAAATGGCCATTTACATTTCCCCGTAGCTTAACTTCTATCATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160602076 360 - 185818997 AATATACCTCACCGAATATTTTACTCTAGTGACGCCAATAAATAGCAATATGATCATTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTAGTTTTTTC--ATTTTATATTATTTGACCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATCTACCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTCAGGAATAAGTGTACCACTTACTCTAAAGAAAGCAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTATCCATAGCTTAACTTCTATCATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167239046 360 - 192294377 AATATACCTCACCGAATATTTTACTCTAGTGACGCCAATAAATAGCAATATGATCATTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTAGTTTTTTC--ATTTTATATTATTTGACCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATCTACCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTCAGGAATAAGTGTACCACTTACTCTAAAGAAAGCAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTATCCATAGCTTAACTTCTATCATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863287 360 -  30496662 AATATACCTCACCGAATATTTTACTCTAGTGACACCAATAAATAGCAATATGATTATTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTAGTTTTTTC--ATTTTATATTATTTGACCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGTGATGTGACATCTACCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTCAGGAATAAGTGTACCACTTACTCTAAAGAAAGCAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTATCCATAGCTTAACTTCTATCATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13386701 360 +  21915920 AATACACCTCACCGAATATTTTACTCTAGTGACGCCCATAAATAGCAATATGATCATTTGAATGAAGG-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTACTTTTGTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGCGATGTGACATCTACCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTCTGGAATAAGTGTACCACTTACTCCAAAGAAAGCAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTATCCATAGCTTAACTTCTATCATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888243 356 -  90373283 AATATACCTCACTGAATATTTTACTCTAGTGACGCCAATAAATAGCAATATGATCATTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTACTTTTGTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGTTTATGGTGAAT-AGTGATGTGACATCTTCCCAT--T--TCTAGTTCAAATTCCACTATTCACTCTCTT----TGGAATAAGTGTACCACTTATTCCAAAGAAAGCAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTACCCGTAGCTTAACTTCTATCATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391194 360 +   7543664 AATATACCTCACCGAATATTTTACTCTAGTGACGCCAGTAAATAGCAATATGATCATTTGAATGAAGG-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTACTTTTGTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGCTTATGGTGAAT-AGCGATGTGACATCTACCCAA--T--TCTAGTTTAAATTCTACTATTCACTCTCTTTCTCTGGAATAAGTGTACCACTTACTCCAAAGAAAGCAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTATCCATAGCTTAACTTCTATCATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5152790 354 -  13750039 AATATACCTCACCGAATATTTTACTCTAGTGACGCCAATAAATAGCAATATGATCATTTGAATGAAGA-A-GACTGTTTTTCCACTTAAGCTTTCTACTTGTATCTACTTTTTTC--ATTTTATATTATTTGATCATAAAATTATTTAATAACCCTCAATAGCCTTCAAGGGAAAGTTGAAACTTCTAAATTAGTGCTTATAGTGAAT-AGTGATGTGACATCTCCCCAT--T--TCTAGTTCAAATTCCACTATTCACTCTTT------GGAATAAGTGGTACACTTATTCCAAAGAAAGTAATCAACTTATGCTTACTTGAATGTAAATGGTCATTTACATTTACCCGTAGCTTAACTTCTATCATA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24805492 349 -  38779656 AAAACACTTCAGAGAATCCCTTGCATTCATTACTTAAATCAATTTCAGTACTATAACTTGAATTAAGATA-GCTCAATTTTCCAGTGAATCTTTTCAATTGTATCTACtttttttaaattttgtattaattgattataaaataCTTCAGTAATTCTCAATAGATTGCAGAGTAAAGTTGAAACTGCCAAATTAGTACAAATGGTAAAT-TATAATAGGACATCTTATTAAGGT--TCTAATT--AATTCTGCTATTCCTTCTGCC-------------GATACCACTTATTCCAAGGAAATCAATCAGCCC-CATTTACCTGAATGTTAATGGTCGTTTACATTTGCACATCACTTACCTTCTGACCTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17976574 289 +  39895921 --TTTAATCCAAAGAATCCATTATCTTAATAATTTCAATAAATTGTAACACCACC------------A-A---------------TTAAGCTTTCTACTTGTTTATGGTTTTCTC--ATATTA---------ATAAAAAAAGGCTTCAGTGATCCTCAATGG-CTTCAGGATAAAGTTGAATATTCTAATTCAGTGCATATGGTGAATAAACAATCTGATATCTTCCAAA--T--TC----TCTAATTCTCCTCTCCCCTCTC----------------------CATGTAACAAGAAAATCAATCAAAATGAGTTTACCTGAATGAGAATGGTAA--------TAAGAATAGCTTCTCTGCTGTCATA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2253660 347 +   3081153 AATACATCTCACAGAATCCCTCACTTAACTGCTTTCAATAAATGGCAATACCATCATTGGAAATAAGA-AGGAACATATGTTCTTCTAAGTCTGCTACTTGTTTCTGCCTTTCAC--GTTTTGTATTAATTGAGCATAAAATTCTTCAATGACCCTCAAAAGCTTTCAGGGTAAAGTTGAAACTTCTAAATTAGTTCATATGTTGAAT-AGTGATCAGAAATTTCCTTTA--CTGTCTAGCTCATATTCTA--------TCTCCT--------GTCAGTGTTACATTTGTTCCAAGGAAAACAGTCACCATAAGTGTCCCTGAATGTGAAGGGTCATTTACTTTTATCCACAGCTTTACCTTTGTCATA
i dasNov3.JH578070          I 123 I 590
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I

a score=76585.000000
s hg38.chr21_GL383579v2_alt     17238 26 +    201197 AGT--------AGC--TACTCAGGACATGCCTGGC---A-
s panTro5.chr21               8639628 26 +  33445071 AGT--------AGC--TACTCAGGACATGCCTGGC---A-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175143 26 +  46275980 AGT--------AGC--TACTCAGGACATGCCTGGC---A-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157661 26 -  13858734 AGT--------AGC--TACTCAGGACATGCCTGGC---A-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203813 26 +  32716333 AGT--------AGC--TACTCAGGACATGCCTGGC---A-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160602436 26 - 185818997 CGT--------AAC--TATTAAGGACATGCCTGGCA----
i rheMac8.chr3              C 0 I 508
s macFas5.chr3              167239406 25 - 192294377 CGT--------AAC--TATTAAGGACATGCCTGGC-----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863647 25 -  30496662 CGT--------AAC--TATTCAGGACATGCCTGGC-----
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13387061 25 +  21915920 TGT--------AAC--TATTCAGGACATGCCTGGC-----
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888599 26 -  90373283 AGT--------AAC--TATTCAGGACATGCCTGGC-A---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391554 23 +   7543664 TGT--------AAC--TATTCAGGACATGCCTG-------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5153144 26 -  13750039 AGT--------AAC--TATTCAGCACATGCCTGGC--A--
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24805841 19 -  38779656 AAT--------AATTATATTCATGGCA-------------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17976863 33 +  39895921 ACTTTTTCTTCTGC--TATCCATCTTA-GCCTGGC----A
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I

a score=11405.000000
s hg38.chr21_GL383579v2_alt     17264 4 +    201197 TATA
s panTro5.chr21               8639654 4 +  33445071 TATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175169 4 +  46275980 TATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157687 4 -  13858734 TATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203839 4 +  32716333 TATA
i nomLeu3.chr25             C 0 C 0
s chlSab2.chr2               19888625 4 -  90373283 TATA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5153170 4 -  13750039 CATA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24805860 4 -  38779656 CATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17976896 4 +  39895921 TATA
i canFam3.chr31             C 0 I 201
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387086 0 +  21915920 C
e macNem1.NW_012015021v1      4863672 0 -  30496662 C
e macFas5.chr3              167239431 0 - 192294377 C
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e manLeu1.NW_012103476v1      3391577 0 +   7543664 C

a score=69989.000000
s hg38.chr21_GL383579v2_alt     17268 17 +    201197 AAATGTACCAAATTAAA
s panTro5.chr21               8639658 17 +  33445071 AAATGTACCAAATTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175173 17 +  46275980 AAATGTACCAAATTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157691 17 -  13858734 AAATGTACCAAATTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203843 17 +  32716333 AAATGTACCAAATTAAA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167239431 11 - 192294377 ------ACCAAATTAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863672 11 -  30496662 ------ACCAAATTAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13387086 11 +  21915920 ------ACCAAATTAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888629 17 -  90373283 AAATGCACCAAATTAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391577 13 +   7543664 ----GCACCAAATTAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5153174 17 -  13750039 AAATGCACCAAATTAAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24805864 17 -  38779656 ATCTGCACCAAATAAAA
i otoGar3.GL873528          C 0 I 4
e dasNov3.JH578070            2254007 590 +   3081153 I
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e canFam3.chr31              17976900 201 +  39895921 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I

a score=699834.000000
s hg38.chr21_GL383579v2_alt     17285 165 +    201197 ATCAGTTTTTG---gggtgccgtggcccatgcctgaaatcctagcattttggaaggccaaggcaggagaatcacttgagcccaggggttagagaccagcctgggcaacataatgagatctcacctctatgaaaaaatttccaaaaacttcacctggtgtgctgatgaa
s panTro5.chr21               8639675 165 +  33445071 ATCAGTTTTTG---gggtgccgtggcccatgcctgaaatcctagcattttggaaagccaaggcaggagaatcacttgagcccaggggttagagaccagcctgggcaacataatgagatctcatctctatgaaaaaatttccaaaaacttcacctggtgtgctgatgaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175190 165 +  46275980 ATCAGTTTTTG---gggtgccgtggcccatgcctgaaatcctagcattttggaaagccaaggcaggagaatcacttgagcccaggggttagagaccagcctgggcaacataatgagatctcatctctatgaaaaaatttccaaaaacttcacctggtgtgctgatgaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157708 164 -  13858734 ATCAGTTTTTG---gggtgccgtggcccatgcctgaaatcctagcattttggaaggccaaggcaggagaat-acttgagcccaggggttagagaccagcctaggcaacataatgagatctcatctctatgaaaaaatttccaaaaacttcacctggtgtgctgatgaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9203860 165 +  32716333 ATCAGTTTTTG---gggtgccgtggcccatgcctgaaatcctagcattttggaaggccaaggcaggagaattacttgagcccaggggtttgagaccagcctgggcaacatattgagatctcatctctatgaaaaaatttacaaaaacttcatctggtttgctgatgaa
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167239442 154 - 192294377 ATAAGTTTTTggccgggcgcggtggctcacgcctgtaatcccagcactttgggaggccgaggcgggcggatcac--aaggtcaggaaatcgagac------------cacggtgaaaccccgtctctactaaaaatacaaaaaaaaattagccgggcgcagtggcggg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863683 165 -  30496662 ATAAGTTTTTG---gggtgccgtggctcatgcctgaaatcctagcattttggaaggccaaggcaggagaatcacttgagtccagggatttgagaccagcctgggcaacataatgagatctcatctctatgaaaaaatttacaaaaTCTTCACCTGTTGTGCTGATGaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13387097 165 +  21915920 ATAAGTTTTTG---gggtgccatggctcatgcctgaaatcctagcattttggaatgccaaggcaggagaatcacttgagtccaggggtttgagaccagcctgggcaacataatgagatctcatctctatgaaaaaatttacaaaaacttcacctggtgtgctgatgaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888646 165 -  90373283 ATAAGTTTTTG---gggtgccgtaacccatgcctgaaatcctagcattttggaaggccaaggcaggagaatcacttgagtccaggggcttgagactagcctgggcaacataatgagatctcatctctatgaaaaaatttacaaaaacttcacctggtgtgctgATaaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391590 165 +   7543664 ATAAGTTTTTG---gggtgctgtgcctcatgcctgaaatcctagcattttggaatgccaaggtaggagaatcacttgagtccaggggtttgagaccagtctgggcaacataatgagatctcatctctatgaaaaaatttacaaaaacttcacctggtgtgctgatgaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5153191 165 -  13750039 ATAAGTTTTTG---gggtgccgtggcccatgcctgaaatcctagcattttggaaggccaaggcaggagaatcacttgagcccaggggtttgagacaagcctgggcaacataatgagatctcatctccatgaaaaaatttacaaaaacttcacctggtgtgctgatgaa
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e canFam3.chr31              17976900 201 +  39895921 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e otoGar3.GL873528           24805881   4 -  38779656 I

a score=162674.000000
s hg38.chr21_GL383579v2_alt     17450 135 +    201197 cttccatagtcccagctactgaagaggctgaggtaggagaattgcttgaggcgtggaggtccaggctgcagtgaggtgtgatcacgccaccgcacttaagcctgggtgacatagtgagactttgtctcaaaaaat
s panTro5.chr21               8639840 135 +  33445071 cttctgtagtcccagctactgaagaggctgaggtaggagaattgcttgaggcgtggaggtccaggctgcagtgaggtgtgatcacgccaccgcacttaagcctgggtgacatagtgagactctgtctcaaaaaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175355 135 +  46275980 cttctgtagtcccagctactgaagaggctgaggtaggagaattgcttgaggcgtggaggtccaggctgcagtgaggtgtgatcacgccaccgcacttaagcctgggtgacatagtgagactctgtctcaaaaaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8157872 135 -  13858734 cttctgtagtcccagctactgaagaggctgaggtaggagaattgcttgaggcgtggaggtccaggctgcagtgaggtgtgatcacgccaccgcacttaagcctgggtgacatagtgagactctgtctcaaaaaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204025 135 +  32716333 ctcctgtagtgccagctactgaagaggctgaggtaggagaattgcttgaggtgtggaggtccaggctgcagtgaggtgtgatcacgccactgcacttaagcctgggtgacatagcgagactctgtctcaacaaat
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167239596 135 - 192294377 cgcctgtagtcccagctactcaggaggctgaggcaggagaatggcgtaaacccaggaggcggagcttgcagtgagccgagatcgcgccactgcactccagcctgggggacagagcgagactccgtctcaaaaaaa
i macFas5.chr3              C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262   0 +  21915920 C
e macNem1.NW_012015021v1      4863848   0 -  30496662 C
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e canFam3.chr31              17976900 201 +  39895921 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e otoGar3.GL873528           24805881   4 -  38779656 I
e colAng1.NW_012120598v1      5153356   0 -  13750039 C
e manLeu1.NW_012103476v1      3391755   0 +   7543664 C
e chlSab2.chr2               19888811   0 -  90373283 C

a score=7644.000000
s hg38.chr21_GL383579v2_alt     17585 4 +    201197 aaaa
s panTro5.chr21               8639975 4 +  33445071 aaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175490 4 +  46275980 aaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158007 4 -  13858734 aaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204160 4 +  32716333 aaaa
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167239731 4 - 192294377 aaaa
i macFas5.chr3              C 0 I 198
s canFam3.chr31              17977101 4 +  39895921 AAAA
i canFam3.chr31             I 201 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262 0 +  21915920 C
e macNem1.NW_012015021v1      4863848 0 -  30496662 C
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e otoGar3.GL873528           24805881 4 -  38779656 I
e colAng1.NW_012120598v1      5153356 0 -  13750039 C
e manLeu1.NW_012103476v1      3391755 0 +   7543664 C
e chlSab2.chr2               19888811 0 -  90373283 C

a score=1289.000000
s hg38.chr21_GL383579v2_alt     17589 6 +    201197 TAGTTT-
s panTro5.chr21               8639979 6 +  33445071 TAGTTT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175494 6 +  46275980 TAGTTT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158011 5 -  13858734 T-GTTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204164 6 +  32716333 GAGTTT-
i nomLeu3.chr25             C 0 C 0
s canFam3.chr31              17977105 6 +  39895921 -TGTTTT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262 0 +  21915920 C
e macNem1.NW_012015021v1      4863848 0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e otoGar3.GL873528           24805881 4 -  38779656 I
e colAng1.NW_012120598v1      5153356 0 -  13750039 C
e manLeu1.NW_012103476v1      3391755 0 +   7543664 C
e chlSab2.chr2               19888811 0 -  90373283 C

a score=11050.000000
s hg38.chr21_GL383579v2_alt     17595 9 +    201197 TTGATTCAA
s panTro5.chr21               8639985 9 +  33445071 TTGATTCAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175500 9 +  46275980 TTGATTCAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158016 9 -  13858734 TTGATTCAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204170 9 +  32716333 TTGATTCAA
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24805885 9 -  38779656 TTTATGCAT
i otoGar3.GL873528          I 4 C 0
s canFam3.chr31              17977111 9 +  39895921 CCAATTCAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262 0 +  21915920 C
e macNem1.NW_012015021v1      4863848 0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13856613 788 -  14377064 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e colAng1.NW_012120598v1      5153356 0 -  13750039 C
e manLeu1.NW_012103476v1      3391755 0 +   7543664 C
e chlSab2.chr2               19888811 0 -  90373283 C

a score=1883.000000
s hg38.chr21_GL383579v2_alt     17604 1 +    201197 G
s panTro5.chr21               8639994 1 +  33445071 G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175509 1 +  46275980 G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158025 1 -  13858734 G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204179 1 +  32716333 G
i nomLeu3.chr25             C 0 C 0
s cebCap1.NW_016107322v1     13857401 1 -  14377064 G
i cebCap1.NW_016107322v1    I 788 C 0
s otoGar3.GL873528           24805894 1 -  38779656 G
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17977120 1 +  39895921 A
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262 0 +  21915920 C
e macNem1.NW_012015021v1      4863848 0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e aotNan1.NW_018487195v1      9090746 802 -   9889416 I
e calJac3.chr21              26428481 1094 +  50472720 I
e saiBol1.JH378168            8634379 789 +  13128814 I
e colAng1.NW_012120598v1      5153356 0 -  13750039 C
e manLeu1.NW_012103476v1      3391755 0 +   7543664 C
e chlSab2.chr2               19888811 0 -  90373283 C

a score=456329.000000
s hg38.chr21_GL383579v2_alt     17605 136 +    201197 ACACTT-TTAAATCATTTTGGAAGATGCatagatatatgtattataattatacatatataGAAAGAGATTGATACACCTACA-------------------------GAGATATGC--AGATTAAATAATGTTAATGTATTATTTCCCTATTGCTTTTCTGTTG--------------
s panTro5.chr21               8639995 136 +  33445071 ACACTT-TTAAATCATTTTGGAAGATGCatagatatatgtattataattatacatatataGAAAGAGATTGATACACCTACA-------------------------GAGATATGC--AGATTAAATAATGTTAATGTATTATTTCCCTATTGCTTTTCTGTTG--------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175510 136 +  46275980 ACACTT-TTAAATCATTTTGGAAGATGCatagatatatgtattataattatacatatataGAAAGAGATTGATACACCTACA-------------------------GAGATATGC--AGATTAAATAATGTTAATGTATTATTTCCCTATTGCTTTTCTGTTG--------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158026 135 -  13858734 ACACTT-TTAAATCGTTTTGGAAGATGCatagatatatgtattataattatacatatataGAAAGAGATTGATACA-CTACA-------------------------GAGATACGC--AGATTAAATAATGTTAATGTATTATTTCCCTATTGCTTTTCTGTTG--------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204180 136 +  32716333 ACACTT-TTAAATCATTTTGGAAGATGCatagatatatgtattataattatacatatatagaaagagattgatacacctata-------------------------gagatatGC--AGATTAAATAATGTTAATGTATTATTTCCCTATTGCTTTTATATTG--------------
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26429575 128 +  50472720 ATACTT-TTAAATGATTTTGGTAGTTGCATAAATATATGTATTATAATTA------CATAGGA--AGACTGATACACATATA-------------------------GAGATATGC--AGATTAAATAATGTTAATGTATTATTTTTCTATTGCTTTTCTATTG--------------
i calJac3.chr21             I 1094 C 0
s saiBol1.JH378168            8635168 134 +  13128814 ACACTT-TTAAATGATTTTGATAGTTGCATAGATATATGTATTATAATTATACATGTATAGAA--AGATTGATACACATATA-------------------------GAGATATGC--AGATTAAATAATGTTAATGTATTATTGTTCTATTGCTTTTCTATTG--------------
i saiBol1.JH378168          I 789 C 0
s cebCap1.NW_016107322v1     13857402 134 -  14377064 ACACTT-TTAAATGATTTTGATAGTTGCatagatatatgtattacaattatacatatatagaa--agattgatacacatata-------------------------gagatatGC--AGATTAAATAATGTTAATGTATTATTTTCCTATTTCTTTTCTATTG--------------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9091548 134 -   9889416 ACACTT-TTAAATGATTTTGATAGTTGCatagacatatgaattataattatacatatatagaa--agattgatacacatata-------------------------gagatatGC--AGATTAAATAATGTTAATGTATTATTTTTCTATTGCTTTTCTATTG--------------
i aotNan1.NW_018487195v1    I 802 C 0
s otoGar3.GL873528           24805895 129 -  38779656 CCACTTATTAAATCATGTAAG--------TAGACACATGTATTATGGATATACTTGTATATAT--AGATTAATACACATATG-------------------------GAAATACGTGGAGATTAAATAAAGTTGATGTATTAGTTTGCCAATTTTTTGCTAGTG--------------
i otoGar3.GL873528          C 0 I 1560
s canFam3.chr31              17977121 174 +  39895921 CCATTTATTAAATCATATAGGTGGATACATAGATATATCTATTGTAAATACATTTGTATATAT--GGATTGATACACATTTAAGATATACAAATTAAATACACATCTAAGATATAC--AAATTAAATAAGGTTAATGCATTAGTGTttttgttttgttttgttttgttttgttttgct
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262   0 +  21915920 C
e macNem1.NW_012015021v1      4863848   0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e colAng1.NW_012120598v1      5153356   0 -  13750039 C
e manLeu1.NW_012103476v1      3391755   0 +   7543664 C
e chlSab2.chr2               19888811   0 -  90373283 C

a score=112799.000000
s hg38.chr21_GL383579v2_alt     17741 33 +    201197 TCTGTAACAAATTACTGTGAGagccgtggtttt
s panTro5.chr21               8640131 33 +  33445071 TCTGTAACAAATTACTgtgagagccgtggtttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175646 33 +  46275980 TCTGTAACAAATTACTgtgagagccgtggtttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158161 33 -  13858734 TCTGTAACAAATTACTgtgagagccgtggtttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204316 33 +  32716333 TCTGTAACAAATTACTGTGAGAGCCGTGGTTTT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26429703 33 +  50472720 TCTGTAACAAATTACTGTGAGAGCTATGGTttt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8635302 33 +  13128814 TCTGTAACAAATTACTGTGAGagctgcggtttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13857536 33 -  14377064 TCTGTAACAAATTACTGTGTGAGCTATGGTttt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9091682 33 -   9889416 TCTGTAACAAATTACTGTGAGAGCTATGGTttt
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17977295 33 +  39895921 tCTGAGAAACattatcacaaaggtagtgatttt
i canFam3.chr31             C 0 I 872
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262  0 +  21915920 C
e macNem1.NW_012015021v1      4863848  0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e otoGar3.GL873528           24806024 1560 -  38779656 I
e colAng1.NW_012120598v1      5153356  0 -  13750039 C
e manLeu1.NW_012103476v1      3391755  0 +   7543664 C
e chlSab2.chr2               19888811  0 -  90373283 C

a score=1282773.000000
s hg38.chr21_GL383579v2_alt     17774 479 +    201197 tctcccgcccctcgtgaccagtgaacatggcttttgcatgcagtgaacatgaccaggttcccaagctgggaggggacagggcatgaatttgtcaagttccctgagtgcctgtggatgtgggggtg----------------------g----aaacag-aaccatgttgttctgatttgcacctttgatggctgagccaaatgctcattctatttagtattacagccgtaatctgtagcaaaacgcttagcattataaaggaaagatcagaaccatttcaaaccatgagagaagacaagacaccaaaggaagtctggggttcttgaccaatggagctcacccttggggccttccagcaaaagatgccttcagttgccccggggctttac--tcccgacccatgtggtagttagacctccccgaaaggaaacagagcatgaaagagagaggtggcagggtcttggaaaagagacagatccgacagttttccatttcaactcacccttct
s panTro5.chr21               8640164 479 +  33445071 tctcccgcccctcgtgaccactgaacatggcttttgcacgcagtgaacatgaccaggttcctgagctgggaggggacagggcatgaatttgtcaagttccctgagtgcctgtggatgtgggggtg----------------------g----aaacag-aaccatgttgttctgatttgcacctttgatggctgagccaaatgctcattctatttaatattacagccgtaatctgtagcaaaacgcttagcattacaaaggaaagatcagaaccatttcaaaccaagagagaagacaagacaccgaaggaagtctggggttcttgaccaatggagctcagccttggggccttccagcaaaagatgccttcagttgccccggggctttac--tcccgaccagtgtggtagttagacctccccgaaaggaaacagagcatgaaagagagaggtggcagggtcttggaaaagagacagatccgacagttttccatttcaactcacccttct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22175679 479 +  46275980 tctcccgcccctcgtgaccactgaacatggcttttgcacgcagtgaacatgaccaggttcctgagctgggaggggacagggcatgaatttgtcaagttccctgagtgcctgtggatgtgggggtg----------------------g----aaacag-aaccatgttgttctgatttgcacctttgatggctgagccaaatgctcattctgtttaatattacagccgtaatctgtagcaaaacgcttagcattacaaaggaaagatcagaaccatttcaaaccaagagagaagacaagacaccaaaggaagtctggggttcttgaccaatggagctcagccttggggccttccagcaaaagatgccttcagttgccccggggctttac--tcccgaccgatgtggtagttagacctccccgaaaggaaacagagcatgaaagagagaggtggcagggtcttggaaaagagacagatccgacagttttccatttcaactcacccttct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158194 476 -  13858734 tctcccgcccctcgtgaccactgaacatggcttttgcatgcagtgaaca-gaccaagttcccgagctgggaggggacagggcatgaatttgtcaagtgccctgagtgcctgtggatgtgggggtg----------------------g----aaacag-aaccatgttgttctgatttgcacctttgatggatgagccaaacgctcattctatttagtattacagccgtaatctgtagcaaaacgcttagcattataaaggaaagatcagaaccatttcaaaccatgagagaagaaaagacaccaaaggaagtctggggttcttgaccaatggagctcagccttggggccttccagcaaaagatgccttccgttgccccggggctttac--tcccgacccatgt-gtagttaga-ctccccgaaaggaaacagagcatgaaagagagaggtggcagggtcttggaaaagagacagatccgacagttttccatttcaactcacccttct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204349 478 +  32716333 TCTCCCGCCCCTTGCGACCACTGGACGTGGCTTTCGCATGCAGTGAACATGCCCAGGTTCCCGAGCTGGGAGGGGACAGGGCATGAATTTGTCAAGTGCCCTGAGTGCCTGTGGCTGTGGGGATG----------------------G----aaacagaaaccacgttgttctgatttgcacctttgatggctgagccaaatgctcattctatttaatattatagccgtaatctgtagcaaaacgcttagcattataaaggaaagatcagaaccatttcaaaccatgagagaagaaaagacaccaaaggaagtctggcgttcttggccaacggagctcagtcttggggccttccagcaaaagatgccttcatttgccccggggctttac--tcccgacccacgtggtggttagacctccccgaaaggaaacagagcaggaa--agagaggtggcagggtcttggaaaagagacagatccgacagttttgcatttcaactcacccttct
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26429736 498 +  50472720 tctccagcccctcatggctcttgggcatggcttttgcatgcagtgagcatgttctgatgcccgagctgggaggggacagggcatggatgtgttgtgtgccctgattgcctgtggttgtgggggtgaaagtgagaactgcacctccaagaaaaaaacagaaaccacgacgttctgatttgcacttttgaaggctgagccaaatgctcattctatttaatattatagccataacctgtggcaaaacaattgacattataaaggaaagataagaaccatttcaaatcatgagagaagaaaagacatcaaaggaagtc--gggttcttggtcaatggagttcagtcttgggtccttccagcaaaagatgccttcagatgccccaggacttaaca-tatggttcaatgtgggggttagacctctctgtagggaaacagagcaggaaggagagaggtggta-------ggaaaagaggcagatccgacagctttgtatttcaactcacttctct
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8635335 502 +  13128814 tctccagcccctcatggctattgggtgtgacttttgcatgcagtgaacatgcccagatgtccgagcttggaagggacagggcatggatgtgtggtgtgccctgattgcctgtggctgtggggacgaaggtgagcactgtacctccaag-aaaaaacagaaacc---ttgttctgatttgaacttttgatggctgagccaaatgctcattctatttaatattatagccataacctgtggcaaaacgatcggcattataaaggaaagataagaaccatttcaaaccgtgagggaagaaaagacatcaaaggaagtctggggttcttggccaatggagttcagtcttggatccttctagcaaaagatgccttcagtcgccccaggactttacactctggtccaatgtagtggttagacctctctaca-ggaaacagagtaggaaggagagaggtgctagggtcttggaaaagaggcagatccgacagctttgcatttcaactcac-cctct
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13857569 506 -  14377064 tctccagcccctcatggctattgggcatggctttt-catgcagtgaacatgcccagatgcccgagctgggaggggacagggcatggatgtgtcgtgtgccctgattgcttgtggctgtggggatgaaggtgagaactgcacctccaag-aaaaaacagaaaccaccttgttctgattcaaacttttgatggctgagccaaatgctcattctatttaatattacagccataacctgtggcaaaacgactggcattataaaggaaagataagaaccatttcaaaccgtgagagaagaaaagacatcaaaggaagtctggggttcttggtcaatggatttcagtcttgggtccttctagcaaaagatgcctccagttgccccaggactttacactctggtccaatgtggcggttagacctctttatagggaaacagagcaggaaggagagaggtggtagggtcttggaaaagaggcagatccgacagctttgcatttcaactcacccctct
i cebCap1.NW_016107322v1    C 0 I 23
s aotNan1.NW_018487195v1      9091715 505 -   9889416 tctccagcccatcatggctattgggcatggcttttgcatgcagtgaacacgcccagatgcccgagctgggaggggacagggcatggacgtgtcgtgtgccctgactgcctgtggctgtgggggtgaaggtgagaactgcacctccaag--aaaaacagaaaccacctca-tctgatttgcacttttgatggctgagctaaatgctcattctatttaatattatagccataacctgtggcaaaacgattggcattataaaggaaaaataagaaccatttcaaaccatgagagaagaaaagacatcaaaggaagcctggggttcttggtcaatggagttcagtcttgggtccttctagcaaaagatgccttcagttgccccaggactttacactctggtccaatgtggtggttagacctctctataggaaaacagagcaggaaggagagaggtggtagagtcttggaaaaggggcagatccgacagctttgcatttcagctcacccctct
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262   0 +  21915920 C
e macNem1.NW_012015021v1      4863848   0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I
e colAng1.NW_012120598v1      5153356   0 -  13750039 C
e manLeu1.NW_012103476v1      3391755   0 +   7543664 C
e chlSab2.chr2               19888811   0 -  90373283 C

a score=68976.000000
s hg38.chr21_GL383579v2_alt     18253 40 +    201197 gatgaatatcccagatggagcccccagatgaaatggccac
s panTro5.chr21               8640643 40 +  33445071 gatgaatatcccagatggagcccccagatgaaatggccac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22176158 40 +  46275980 gatgaatatcccagatggagcccccagatgaaatggccac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158670 39 -  13858734 gatgaatatcccagatggag-ccccagatgaaatggccac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204827 40 +  32716333 gatgaatatcccagacggagcccccagatgaaatggccac
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26430234 27 +  50472720 -------------gatggagctcccagatgaaatggccat
i calJac3.chr21             C 0 I 1
s saiBol1.JH378168            8635837 27 +  13128814 -------------gatggagcccccagctgaaatggccac
i saiBol1.JH378168          C 0 I 1
s aotNan1.NW_018487195v1      9092220 27 -   9889416 -------------gatggagcccccagctgaaatggccag
i aotNan1.NW_018487195v1    C 0 I 1
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262  0 +  21915920 C
e macNem1.NW_012015021v1      4863848  0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e cebCap1.NW_016107322v1     13858075 23 -  14377064 I
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I
e colAng1.NW_012120598v1      5153356  0 -  13750039 C
e manLeu1.NW_012103476v1      3391755  0 +   7543664 C
e chlSab2.chr2               19888811  0 -  90373283 C

a score=1064020.000000
s hg38.chr21_GL383579v2_alt     18293 395 +    201197 ggcaacggccacgacgggcggggg-aaaaaccacagctgccactgggagcctgca-cggttggctggctgg-cgcttgctgcccggtgtgccagtggaactcta----ctctggccaaggaattcagctctgtctgaacagaggggaagcatacaatgattaaggagacacatttgcgctgagcaaggggttcttc--------ccccaggaccttccccttttgttccttaaactgttttc-----------------tcttgttttccttttccaa--gag-gttttcttccccagcacgctgcttctgttagggaagttaatggagaagcgacccctactggctgataactgcaaatttagcggggctcatttgagatagttga------tt--catgcagccacttgaaatacttttgagtcccaaacttgatt
s panTro5.chr21               8640683 401 +  33445071 ggcaatggccacgacgggcagggg-aaaaaccacagctgccactgggagcctgca-cggttggctggctgg-cgcttgctgcccggtgtgccagtggaactcta----ctctgggcaaggaattcagctctgtctgaaccggggggaaacatacaatgattaaggagacacatttgcgctgagcaaggggttcttc--------ccccaggacctttcccttttgttccttaaactgttttc-----------------tcttgttttccttttctaa--gag-gttttcttccccagcacgctgcttctgttagggaagttaatggagaagcgacccctactggctaataactgcaaatttagccgggctcatttgagatagttgaaacagatt--catgcagccacttgaaatacttttgagtcccaaacttgatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22176198 401 +  46275980 ggcaatggccacgacgggcagggg-aaaaaccacagctgccactgggagcctgca-cggttggctggctgg-cgcttgctgcccggtgtgccagtggaactcta----ctctggccaaggaattcagctctgtctgaaccggggggaagcatacaatgattaaggagacacatttgcgctgagcaaggggttcttc--------ccccaggaccttccccttttgttccttaaactgttttc-----------------tcttgttttccttttctaa--gag-gttttcttccccagcacgctgcttctgttagggaagttaatggagaagcgacccctactggctaataactgcaaatttagccgggctcatttgagatagttgaaacagatt--catgcagccacttgaaatacttttgagtcccaaacttgatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8158709 396 -  13858734 ggcaatggccacgacgggcagggg-aaaaacc-cagctgccactgggagcctgca-cagttggctggctgg-cgcttgctgcccggtgtgccagtggaactcta----ctctggccaaggaattcagctctgtctgaaccggggggaagcata-aatgattaaggagacacatttgcgctgagcaaggggttctt---------ccccaggacctt-cccttttgttccttaaactcttttc-----------------tcttgttttccttttctaa--gag-gttttcttccccagcacgctgcttctgttagggaagttaatggagaagcga-ccctactggctgataactgcaaatttagccgggctcatttgagatagttgaaacagatt--catgcagccacttgaaatacttttgagtcccaaacttgatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9204867 408 +  32716333 ggcaacggccacgatgggcagggg-aaaaaccacagctgccactgggagcctgca-cagttggctggctgg-cgcttgctgcccggtgtgccagtggaactctacctcctctggccaaggaattcagctctgtctgaaccggggggaagcatacaatgattaaagagacacatttgcgctgagcaaggggttcttc--------ccccaggaccttccccttttgttccttaaactgttttc-----------------tctttttttccttttctaa--gtgaggtttgttccccagcacgctgcttctgttagggaagttaatggaggagcgacccctactggctgataactgcaaatttagccgggctcatttgagatagtttaaacagatttgcatgcagcctcttgaaatactttttagtcccaaacttgatt
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26430262 404 +  50472720 cccaatagccatgatgggcaggagaaaaaaacacagctgccattgggagcctgca-cagttggctggctgg-cgtttgctgcctgctgcaccagtggaactctacctcctctg---aaggaattcagccctgtctgaactg-ggggaaccatacaatgattaaagagacacatttgcactgagcaaagagttcctg--------cccccggaccttccccatttgttccttaaactgttttc-----------------tgtttttttccttttctgagtgag-gttttcctccccaacacgctgcttcagatagggaaattaacggaggagcgacccctgctggctgataattgcaaatttagcagggttcatttgaggtagtttaaacagata--catgcagccacttgaaatacttttcagtcccaaacttgatt
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8635865 413 +  13128814 cccagtggccatgacgggcaggag-aaaaaccacagctggcactgggagcctgca-cagctggccggctggccctttgctgcctgctgcaccagcggaactctacctcctgtggccaaggaattcagccctgtctgaacta-gggaaaccatacaacgattaaagaga--------cactgagcaaagggttcctgggttcctcccccaggaccttccccttttgttccttaaattgttttctttcttttttttttttttttttttttttttttctaagtgag-atttccctccccaacacgctgc-tctgatagggaagttagtggaggagcgacccctgctggccgataactgcaaatttagccgggttcttcggaggtcgtttaaacagat------------acttgaaacacttttcagtcccaaacttgatg
i saiBol1.JH378168          I 1 C 0
s cebCap1.NW_016107322v1     13858098 409 -  14377064 GGcaatggacatgacgggcaggag-aaaaaccgcagctgccactgggagcctgcaccagttggctggctgt-cgttcgctgcctgctgcaccagtggaactccacctcctctggccaaggaattcagctctgtctgaactg-ggggaaccatacaatgattaaagagacacatttgcactgagcaaaaggttcctc--------ccccaggaccttccccttttgttccttaaactgatttc---------------tgttttattttccttttctaagtgag-atttgcctccccaacacgctacttctgatagggaagttaatggaggagcgacccctgctggctattaactgcaaatttagctgggttcatttgaggtagtttaaacagata--catgcagccacttgaaatacttttcagtcccaaacttgatt
i cebCap1.NW_016107322v1    I 23 C 0
s aotNan1.NW_018487195v1      9092248 407 -   9889416 cccaatggtcatgacgggcaggag-aaaaaccacagctgcccttgggagcctgca-cagttggctggctgg-cgtttgctgcctgctgcacccgtggaactctacctcttctggccaaggaattcagccctgtctgaactg-ggggaaccatacaatgattaaagagacacatttgcactgagcaaagggttcttc--------ccccaggatcttccccttttgttccttaaactgttttc----------------tgttttttttccttttctaagtgag-gtttccctccccaacactctgcttctgatagggaagttaatggaggagcgacccctgctggctgataactgcaaatttagccgggttcatttgaggtagtttaaacagata--catgcagccactcgaaatacttttcagtcccaaacttgatt
i aotNan1.NW_018487195v1    I 1 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262   0 +  21915920 C
e macNem1.NW_012015021v1      4863848   0 -  30496662 C
e macFas5.chr3              167239735 198 - 192294377 I
e rheMac8.chr3              160602462 508 - 185818997 I
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I
e colAng1.NW_012120598v1      5153356   0 -  13750039 C
e manLeu1.NW_012103476v1      3391755   0 +   7543664 C
e chlSab2.chr2               19888811   0 -  90373283 C

a score=17829.000000
s hg38.chr21_GL383579v2_alt     18688 5 +    201197 acaag
s panTro5.chr21               8641084 5 +  33445071 acaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22176599 5 +  46275980 acaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8159105 5 -  13858734 acaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9205275 5 +  32716333 acaag
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167239933 5 - 192294377 ATGaa
i macFas5.chr3              I 198 C 0
s calJac3.chr21              26430666 5 +  50472720 acaag
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8636278 5 +  13128814 acaag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13858507 5 -  14377064 acaag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9092655 5 -   9889416 acaag
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e cerAty1.NW_012002954v1     13387262 0 +  21915920 C
e macNem1.NW_012015021v1      4863848 0 -  30496662 C
e rheMac8.chr3              160602462 508 - 185818997 I
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I
e colAng1.NW_012120598v1      5153356 0 -  13750039 C
e manLeu1.NW_012103476v1      3391755 0 +   7543664 C
e chlSab2.chr2               19888811 0 -  90373283 C

a score=4410116.000000
s hg38.chr21_GL383579v2_alt     18693 507 +    201197  
s panTro5.chr21               8641089 507 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22176604 507 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8159110 508 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9205280 506 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160602970 480 - 185818997  
i rheMac8.chr3              I 508 C 0
s macFas5.chr3              167239938 480 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4863848 480 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13387262 480 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19888811 481 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3391755 480 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5153356 481 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26430671 500 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8636283 504 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13858512 519 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9092660 522 -   9889416  
i aotNan1.NW_018487195v1    C 0 I 6377
e dasNov3.JH578070            2254007 590 +   3081153 I
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=13394504.000000
s hg38.chr21_GL383579v2_alt     19200 1626 +    201197  
s panTro5.chr21               8641596 1626 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22177111 1626 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8159618 1617 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9205786 1621 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160603450 1614 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167240418 1614 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4864328 1614 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13387742 1628 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19889292 1633 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3392235 1644 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5153837 1628 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26431171 1611 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8636787 1618 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13859031 1621 -  14377064  
i cebCap1.NW_016107322v1    C 0 I 310
e dasNov3.JH578070            2254007  590 +   3081153 I
e canFam3.chr31              17977328  872 +  39895921 I
e aotNan1.NW_018487195v1      9093182 6377 -   9889416 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=85357.000000
s hg38.chr21_GL383579v2_alt     20826 11 +    201197 tcgttgtctat
s panTro5.chr21               8643222 11 +  33445071 tcgttgtctat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22178737 11 +  46275980 tcgttgtctat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161235 11 -  13858734 tcgttgtctat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9207407 11 +  32716333 tcgttgtctat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605064 11 - 185818997 tcattatccat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242032 11 - 192294377 tcattatccat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4865942 11 -  30496662 tcattatccat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13389370 11 +  21915920 tcattgtccat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19890925 11 -  90373283 tcattgttcat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3393879 11 +   7543664 tcattgttcat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5155465 11 -  13750039 tcattgtccat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26432782 11 +  50472720 tcattgtcTGt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8638405 11 +  13128814 tcattgtccat
i saiBol1.JH378168          C 0 I 318
s cebCap1.NW_016107322v1     13860962 11 -  14377064 tcgttgtccat
i cebCap1.NW_016107322v1    I 310 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e canFam3.chr31              17977328 872 +  39895921 I
e aotNan1.NW_018487195v1      9093182 6377 -   9889416 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=36169.000000
s hg38.chr21_GL383579v2_alt     20837 4 +    201197 attc
s panTro5.chr21               8643233 4 +  33445071 attc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22178748 4 +  46275980 attc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161246 4 -  13858734 attc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9207418 4 +  32716333 attc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605075 4 - 185818997 attc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242043 4 - 192294377 attc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4865953 4 -  30496662 attc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13389381 4 +  21915920 attc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19890936 4 -  90373283 attc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3393890 4 +   7543664 attc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5155476 4 -  13750039 attc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26432793 4 +  50472720 tttc
i calJac3.chr21             C 0 I 1275
s saiBol1.JH378168            8638734 4 +  13128814 attc
i saiBol1.JH378168          I 318 C 0
s cebCap1.NW_016107322v1     13860973 4 -  14377064 attc
i cebCap1.NW_016107322v1    C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e canFam3.chr31              17977328 872 +  39895921 I
e aotNan1.NW_018487195v1      9093182 6377 -   9889416 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=340870.000000
s hg38.chr21_GL383579v2_alt     20841 50 +    201197 taacagcagttaggtgtgcctcttcagagggaggaaatgatacgggagga
s panTro5.chr21               8643237 46 +  33445071 taacagcagttagatgtgcctcttcagagggaggaaatgatacggg----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22178752 46 +  46275980 taacagcagttagatgtgcctcttcagagggaggaaatgatacggg----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161250 50 -  13858734 taacagcagttagatgtgcctcttcagagggaggaaatgatacgggagga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9207422 50 +  32716333 taacagcagttagatgtgcctcttcagagggaggaaatgataccggagga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605079 50 - 185818997 taacagcagttagatgtgcctcttcagagtggggaaaAgatacaggagga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242047 50 - 192294377 taacagcagttagatgtgcctcttcagagtggggaaaAgatacaggagga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4865957 50 -  30496662 taacagaagttagatgtgcctcttcagagtggggaaaAgatacaggagga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13389385 50 +  21915920 taacagcagttagatgtgcctcttcagagtggggaaaAgatacaggagga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19890940 50 -  90373283 taacagcagttagatgtgcctcttcagacgggggaaaAgatacaggagga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3393894 50 +   7543664 taacagcagttagatgtgcctcttcagagtggggaaaAgatacaggagga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5155480 50 -  13750039 taacagcagttagatgtgcctcttcagaggggggaaaAGATAAAAGagga
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8638738 50 +  13128814 taacagcagttagaggtgcttcctcagagggaggaaatgatgtggaagtg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13860977 50 -  14377064 taacagcagttagaggtgcttcctcagagggaggaaatgatatgagagca
i cebCap1.NW_016107322v1    C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e canFam3.chr31              17977328 872 +  39895921 I
e aotNan1.NW_018487195v1      9093182 6377 -   9889416 I
e calJac3.chr21              26432797 1275 +  50472720 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=4709808.000000
s hg38.chr21_GL383579v2_alt     20891 579 +    201197  
s panTro5.chr21               8643283 576 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22178798 574 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161300 579 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9207472 571 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605129 601 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242097 601 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4866007 601 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13389435 600 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19890990 600 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3393944 600 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5155530 600 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8638788 606 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13861027 625 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9099559 624 -   9889416  
i aotNan1.NW_018487195v1    I 6377 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e canFam3.chr31              17977328 872 +  39895921 I
e calJac3.chr21              26432797 1275 +  50472720 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=586783.000000
s hg38.chr21_GL383579v2_alt     21470 62 +    201197 caggtgagccacacccctgttgcacgtcctgtgaggggaatctgggaactctaccagttcaT
s panTro5.chr21               8643859 62 +  33445071 caggtgagccacacccctgttgcacgtcctgtgaggggaatctgggaactctactagttcaT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22179372 62 +  46275980 caggtgagccacacccctgttgcacgtcctgtgaggggaatctgggaactctaccagttcaT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161879 62 -  13858734 caggtgagccacacccctgttgcacgtcctgtgaggggaatctgggaactctaccagttcaT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9208043 62 +  32716333 caggtgagccacaaccctgtcacacgtcctgtgaggggaatcagggaactctaccatttcaT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605730 62 - 185818997 caggtgagccacaaccctgttgcacgtcctgtgaggggaatcaaggaactctaccggttCAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242698 62 - 192294377 caggtgagccacacccttgtcgcacgtcctgtgaggggaatcaaggaactctaccggttCAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4866608 62 -  30496662 caggtgagccacacccctgtcgcacgtcctgtgaggggaatcaaggaactctaccggttCAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13390035 62 +  21915920 caggggagccacacccctgtcccacctcctgtgaggggaatcagggaactctactggttcaT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19891590 62 -  90373283 taggtgagccacacccctgtggcacgtcctgtgaggggaatcagggaactctactggttcaT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3394544 62 +   7543664 caggggagccacacccctgtcccacctccggtgaggggaatcagggaactctaccggttcaT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5156130 62 -  13750039 caggtgagccacacacctgtcgcacgtcctgtgagaggaatcagggaactctactggttcaT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26434072 62 +  50472720 caggtgagccacatccctgtcacaggtcctgtgaggggaatcagggaactctacagtttcaC
i calJac3.chr21             I 1275 C 0
s saiBol1.JH378168            8639394 62 +  13128814 cagatgagccacatccctgttacaggtcctgtgaagggaatcagggaactctacagtttcaC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13861652 62 -  14377064 caggtgagccacatccctgtcacaggtcctgtgaggggaatcagggaactctgcagtttcaC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9100183 62 -   9889416 caggtgagccacatccctgttacaggtcctgtgaggggaatcagggaactctacagtttcaC
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2254007 590 +   3081153 I
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=95416.000000
s hg38.chr21_GL383579v2_alt     21532 9 +    201197 TATGCATAT
s panTro5.chr21               8643921 9 +  33445071 TATGCATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22179434 9 +  46275980 TATGCATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161941 9 -  13858734 TATGCATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9208105 9 +  32716333 TATGCATAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605792 9 - 185818997 TATGCATAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242760 9 - 192294377 TATGCATAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4866670 9 -  30496662 TATGCATAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13390097 9 +  21915920 TATGCATAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19891652 9 -  90373283 TATGCATAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3394606 9 +   7543664 TATGCATAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5156192 9 -  13750039 TATTCATAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26434134 9 +  50472720 TATGCATAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8639456 9 +  13128814 TATGCATAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13861714 9 -  14377064 TATGCATGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9100245 9 -   9889416 TATGCATAT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2254597 9 +   3081153 TATGAATGT
i dasNov3.JH578070          I 590 C 0
e canFam3.chr31              17977328 872 +  39895921 I
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=506013.000000
s hg38.chr21_GL383579v2_alt     21541 46 +    201197 TTTAAATCAAATAGCTCAGCTATTG----AATTAAATTAAATGACACATG
s panTro5.chr21               8643930 46 +  33445071 TTTAAATCAAATAGCTCAGCTATTG----AATTAAATGAAATGACACATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22179443 46 +  46275980 TTTAAATCAAATAGCTCAGCTATTG----AATTAAATTAAATGACACATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161950 46 -  13858734 TTTAAATCAAATAGCTCAGCTATTG----AATCAAATTAAATGACACATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9208114 46 +  32716333 TTTAAATCAAATAGCTCAGCTATTG----AATTAAATTAAATGACACATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605801 45 - 185818997 TTTAAATCAAA-AGCTCAGCTATTG----AATTAAATTAAATGACACATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242769 46 - 192294377 TTTAAATCAAATAGCTCAGCTATTG----AATTAAATTAAATGACACATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4866679 46 -  30496662 TTTAAATCAAATAGCTCAGCTGTTG----AATTAAATTAAATGACACATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13390106 46 +  21915920 TTTAAATCAAATAGCTCAGCTATCG----AATTAATTTAAATGACACACG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19891661 46 -  90373283 TTTAAATCAAATAGCTCAGCTATTG----AATTAAATTAAATGACACATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3394615 46 +   7543664 TTTAAATCAAATAGCTCAGCTATCG----AATTAATTTAAATGAGACATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5156201 46 -  13750039 TTTAAATCAAATAGCTCAGCTATTG----AATAAAATTAAATGACACATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26434143 50 +  50472720 TTAAAATCAAATAGCTCAGCTATTGAACTAATTAAATTAAATGACACATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8639465 50 +  13128814 TTTAAATCAAATAGCTCGGCTACTGAACTAATTAAATTAAATGACACATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13861723 50 -  14377064 TTTAAATCAAATAGCTCGGCTATCGAACTAATTAAATTAAATGACACATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9100254 50 -   9889416 TTTAAATCAAATAGCTCGGCTATTGAACTAATTAAATTAAATGACACATG
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17978200 50 +  39895921 TTTAAGTCAAACAGTTCAGCTATTGCATCAATTAAATGAAATAATAGTTC
i canFam3.chr31             I 872 C 0
s dasNov3.JH578070            2254606 49 +   3081153 TTTAAATGGAACAGA-CAGGTATTAAATCAATTAAGTGAAATGACAATTC
i dasNov3.JH578070          C 0 C 0
e otoGar3.GL873528           24806024 1560 -  38779656 I

a score=4639801.000000
s hg38.chr21_GL383579v2_alt     21587 454 +    201197  
s panTro5.chr21               8643976 455 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22179489 455 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8161996 453 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9208160 456 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160605846 458 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167242815 461 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4866725 461 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13390152 461 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19891707 461 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3394661 456 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5156247 455 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26434193 453 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8639515 450 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13861773 454 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9100304 455 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24807584 486 -  38779656  
i otoGar3.GL873528          I 1560 C 0
s canFam3.chr31              17978250 509 +  39895921  
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2254655 509 +   3081153  
i dasNov3.JH578070          C 0 C 0

a score=68765.000000
s hg38.chr21_GL383579v2_alt     22041 5 +    201197 TTACT
s panTro5.chr21               8644431 5 +  33445071 TTACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22179944 5 +  46275980 TTACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8162449 5 -  13858734 TTACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9208616 5 +  32716333 TTACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160606304 5 - 185818997 TTACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167243276 5 - 192294377 TTACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4867186 5 -  30496662 TTACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13390613 5 +  21915920 TTACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19892168 5 -  90373283 TTACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395117 5 +   7543664 TTACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5156702 5 -  13750039 TTACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26434646 5 +  50472720 TTACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8639965 5 +  13128814 TTACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13862227 5 -  14377064 TTACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9100759 5 -   9889416 TTACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808070 5 -  38779656 TTACT
i otoGar3.GL873528          C 0 I 8
s canFam3.chr31              17978759 5 +  39895921 TTATT
i canFam3.chr31             C 0 I 9
e dasNov3.JH578070            2255164 0 +   3081153 C

a score=5193626.000000
s hg38.chr21_GL383579v2_alt     22046 556 +    201197  
s panTro5.chr21               8644436 555 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22179949 556 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8162454 556 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9208621 542 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160606309 559 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167243281 559 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4867191 558 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13390618 559 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19892173 559 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395122 559 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5156707 557 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26434651 544 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8639970 544 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13862232 544 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9100764 544 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2255164   0 +   3081153 C
e canFam3.chr31              17978764   9 +  39895921 I
e otoGar3.GL873528           24808075   8 -  38779656 I

a score=142975.000000
s hg38.chr21_GL383579v2_alt     22602 17 +    201197 aACTGGGGTTTATGTAA
s panTro5.chr21               8644991 17 +  33445071 aACTGGGGTTTATGTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180505 17 +  46275980 aACTGGGGTTTATGTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163010 17 -  13858734 aACTGGGGTTTATGTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209163 16 +  32716333 aACT-GGGTTAATGTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160606868 16 - 185818997 aACT-GGGTTGATGTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167243840 16 - 192294377 aACT-GGGTTGATGTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4867749 16 -  30496662 aACT-GGGTTGATGTAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391177 16 +  21915920 aACT-GGGTTGATGTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19892732 16 -  90373283 aACT-GGGTTGATGTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395681 16 +   7543664 aACT-GGGTTGATGTAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157264 16 -  13750039 aACT-GGGTTGATGTAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435195 16 +  50472720 aACT-GAGTTGATGTAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8640514 16 +  13128814 aACT-GGGTTGTTGTAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13862776 16 -  14377064 aACT-GGGTTGATGGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101308 16 -   9889416 aACT-GGGTTGATGTAA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2255164 17 +   3081153 AAGTGAGATTAATTTTA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              17978764  9 +  39895921 I
e otoGar3.GL873528           24808075  8 -  38779656 I

a score=64471.000000
s hg38.chr21_GL383579v2_alt     22619 6 +    201197 TACGTA
s panTro5.chr21               8645008 6 +  33445071 TACGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180522 6 +  46275980 TACGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163027 6 -  13858734 TACGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209179 6 +  32716333 TATGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160606884 6 - 185818997 TATGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167243856 6 - 192294377 TATGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4867765 6 -  30496662 TATGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391193 6 +  21915920 TATGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19892748 6 -  90373283 TATGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395697 6 +   7543664 TATGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157280 6 -  13750039 TATGTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435211 6 +  50472720 TATGTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8640530 6 +  13128814 TATGTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13862792 6 -  14377064 TATGTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101324 6 -   9889416 TATATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808083 6 -  38779656 TAGGCA
i otoGar3.GL873528          I 8 C 0
s dasNov3.JH578070            2255181 6 +   3081153 TAAGAA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              17978764 9 +  39895921 I

a score=1544984.000000
s hg38.chr21_GL383579v2_alt     22625 162 +    201197 GAATATTTGATCGTTTAGGCTGCTGAC----AGAATTTGTGCTGTGTCAGAATCCGATCAAT-CAATTAACTGGGA-AAAGAAATAACAAATTTTGC---AAAAA---TTTTAAAAATAATAATTCATAATCA------------------------------------------AATAAATCATATCCCAATCTTGTTTTCCT-TAGAATAAT-AAA
s panTro5.chr21               8645014 162 +  33445071 GAATATTTGATCATTTACGCTGCTGAC----AGAATTTGTGCTGTGTCAGAATCCGATCAAT-CAATTAACTGGGA-AAAGAAATAACAAATTTTGC---AAAAA---TTTTAAAAATAATAATTCATAATCA------------------------------------------AATAAATCATATCCCAATCTTGTTTTCCT-TAGAATAAT-AAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180528 162 +  46275980 GAATATTTGATCATTTACGCTGCTGAC----AGAATTTGTGCTGTGTCAGAATCCGATCAAT-CAATTAACTGGGA-AAAGAAATAACAAATTTTGC---AAAAA---TTTTAAAAATAATAGTTCATAATCA------------------------------------------AATAAATCATATCCCAATCTTGTTTTCCT-TAGAATAAT-AAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163033 162 -  13858734 GAATATTTGATCATTTAGGCTGCTGAC----AGAATTTGTGCTGTGTCAGAATCC-ATCAATCCAATTAACTGGGA-AAAGAAATAACAAATTTTTC---AAAAA---TTTTAAAAATAATAATTCATAATCA------------------------------------------AATAAATCATATCCCAATCTTGTTTTCCT-TAGAATAAT-AAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209185 160 +  32716333 GAATATTTGATCATTTAGGCTGCTGAC----AGAATTTGTGC--TGTCAGAAACTGATCCAT-CAATTAATTGGGA-AAAGAAATAACAAATTTTGC---AAAAA---TTTTAAAAATAATAATTCATAATCA------------------------------------------AATAAATCATATCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160606890 200 - 185818997 GAATATTTGACCATTTAGGCTACTGAC----AGAATTTGTGCTGTGTCAGAAACTGATCAAT-CAAT----TGGGA-AAAGGAATAACAAATTTTGC---AAAAC---TTttaaaaataataattgataatcatataaattatatatgataatttattaataataaattatatatgataaattataTCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167243862 200 - 192294377 GAATATTTGATCATTTAGGCTACTGAC----AGAATTTGTGCTGTGTCAGAAACTGATCAAT-CAAT----TGGGA-AAAGGAATAACAAATTTTGC---AAAAC---TTttaaaaataataattgataatcatataaattatatatgataatttattaataataaattatatatgataaattataTCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4867771 200 -  30496662 GAATATTTGATCATTTAGGCTACTGAC----AGAATTTGTGCTGTGTCAGAAACTGATCAAC-CAAT----TGGGA-AAAGGAATAACAAATTTTGC---AAAAC---TTttaaaaataataattgataatcatataaattatatatgataatttattaataataaattatatatgataaattataTCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391199 158 +  21915920 GAATATTTGATCATTTAGGCTGCTGAC----AGAATTTGTGCTGTGTCAGAAACTGATCAAT-CAAT----TGGGA-AAAGGAATAACAAATTTTGC---AAAAC---TTTTAAAAATAATAATTGATAATCA------------------------------------------AATAAATTATATCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19892754 151 -  90373283 GAATATTTGATCATTTAGGCTGCTGAC----AGAATTTGTGCTGTGTCAGAAACTGATCAAT-CAAT----TGGGA-AAAGGAATAACAAATTTTGC---AAAAC---TTTTAAA---AATAATTGAT----A------------------------------------------AATAAATTATATCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395703 158 +   7543664 GAATATTTGATCATTTAGGCTGCTGAC----AGAATTTGTGCTGTATCAGAAACTGATCAAT-CAAT----TGGGA-AAAGGAATAACACATTTTGC---AAAAC---TTTTAAAAATAATAATTGATAATCA------------------------------------------AATAAATTATATCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157286 158 -  13750039 GAATATTTGATCATTTAGGCTGCTGAC----AGAATTTGTGCTGTGTCAGAAACTGATCAAT-CAAT----TGGGA-AAAGGAATAACAAATTTTGC---AAAAC---TTTTAAAAATAATAATTGATAATCA------------------------------------------AATACATTATATCCCAATCTTGTTTTTCT-TAGAATAAT-AAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435217 152 +  50472720 GAAGATTTGATCATTTAGGCTGCTGAA----GGAATTTGTACTATGTCAGAAACCAATCAAT-TAGT----TGGGA-AAA-AAATGACaaattttac---aaaaaaaagttt-a----aataatagataatca------------------------------------------aataaattatatCCAAATCTTGTTTTTCT-TAGAAT----AAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8640536 158 +  13128814 GAAGATTTGATCATTTAGGCTGCTGAT----GGAATTTGTGCTATGTCAGAAACTGATCAAT-TAAT----TGGGA-AAAGAAATGACACATTTAAC---AAAAAAGTTTTTAA----AATAATAGATAATCA------------------------------------------AATAAATTATATCCAAATCTTGTTTTTCT-TAGAATAATAAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13862798 156 -  14377064 GAAGATTTGATCATTTAGGCTGCTGAT----GGAATTTGTGCTATGTCAGAAACTGATCAAT-TAAT----TGGGA-AAG-AAATGACACATTTTAC---AAAAAAATTTTTAA----AATAATAGATAATCA------------------------------------------AATAAATTATATCCAAATCTCATTTTTCT-TAGAATAAT-AAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101330 157 -   9889416 GAAGATTTGATCATTTAGGCTGCGAAT----GGAATTTGTGCTATGTCAGAAACTGATCAAT-TAAT----TGGGA-Aaagaaataacacattttac---aaaaaaaattttta----aataatagataatca------------------------------------------aataaATTATATCCAAATCTTGTTTTTCT-TAGAATAAT-AAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808089 150 -  38779656 GAATATTGGATTATTGAAGCTGTTGAT----AGAATTTCTCCTATATCAAAAACTGTTTAAT-CAATTAATTGGAA-GAAAAAATAGCGAATTTTGA---AAAAAGATGTAAAAAAATAATAACAGGGAATCA------------------------------------------TATTAATCATATTTCAACCTTGTTTT-----------------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17978773 166 +  39895921 GAATATTTGATCATGTAAGCTGTTGACAAATAGAATTTGTGCTACATCAGAAATTAAACAAT-TCTT----TGAAAGAAAAAAATGACAAGTTTTCCCCTGAAAA---TATTAA-AATAATAATAGAGACCCA------------------------------------------ATGAGATCAGAGCCCAACCTTATTTTTATCTAGACGTAT-GAT
i canFam3.chr31             I 9 C 0
s dasNov3.JH578070            2255187 145 +   3081153 CAATATATGATTATATAA-------------ACAATTTATGCTATAACAGAAATTGGTCAGT-TAAT----TGAAG-GAACAAATGACAAATTTTGC---AAAAAATATTTTAAAACC-----TAGGCAGTTA------------------------------------------TATAAATCTGATTCAA--CCTTTTTTCCT-CAGAATAAC-AAA
i dasNov3.JH578070          C 0 M 689

a score=1397821.000000
s hg38.chr21_GL383579v2_alt     22787 132 +    201197 ATATATGGCATTCTTGGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGGTTAATTTAGTACTTCAATTTCTTTTATTTTCAATATCCTT---ATTCCAA--AGTG-TATGAAGTTATATTTA------TAATCATTAAAAAT
s panTro5.chr21               8645176 132 +  33445071 ATATATGGCATTCTTGGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGGTTAATTTAGTACTTCAATTTCTTTGATTTTCAATATCCTT---ATTCCAA--AGTG-TATGAGGTTATATTTA------TAATCATTAAAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180690 137 +  46275980 ATATATGGCATTCTTGGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGGTTAATTTAGTACTTCAATTTCTTTTATTTTCAATATCCTT---ATTCCAA--AGTG-TATGAGGTTATATTTATAG-AGTAATCATTAAAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163195 137 -  13858734 ATATATGGCATTCTTGGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGGTTAATTTAGAACTTCAATTTCTTTTATTTTCAATATCCTT---ATTCCAA--AGTG-TATGAGGTTATATTTATAG-AGTAATCATTAAAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209345 137 +  32716333 ATATATGGCATTCCTGGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGGTTAATTTAGTACTTCGATTTCTTTTATTTTCGATATCCTT---ATTCCAA--AGCG-TATAAGGTTATATTTACAT-AGTAATCATTAAAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607090 138 - 185818997 ATACATGGCATGCTTAGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTA-TATATGGTTATATTTATATAAGTAATCATTAAAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244062 138 - 192294377 ATATATGGCATGCTTAGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTG-TATATGGTTatatttatataagtaatcattaaaaat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4867971 138 -  30496662 ATATATGGCATGCTTAGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTG-TATATGGTTatatttatataagtaatcattaaaaat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391357 138 +  21915920 ATATATGACATGCTTAGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTA-TATATGGTTATATTTATATAAGTAATCATTAAAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19892905 137 -  90373283 ATATATGACATGCTTAGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTG-TATATGGTTATATTTATAT-AGTAATCATTAAAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395861 137 +   7543664 ATATATGACATGCTTAGTATCAGTTTCCTATTTGT-GAAATATGGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTG-TATATGGTTATATTTATAT-AGTAATCATTAAAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157444 137 -  13750039 ATATATGGCATGCTTAGTATCAGTTTCCTATTTGT-GAAATATTGAGG-TAGATTAATTTAGTACTTCAATTTCTTTTACTTTTAGTACCCTT---ATTCCAA--ACTG-TATATGGTTATATTTATAT-AGTAATTGTTAAAAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435369 137 +  50472720 AAATGTGGCATTCTTGGTATCAGTTTCATATTTAT-GAAATATGGAGG-TAGATTAATTTAATAATTCAATTTCTTTTACTTTCAATATCCTT---ATTGCAA--ACTG-TATATGGTTATATTTATGT-AGTAATCATTAAAAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8640694 137 +  13128814 AAATATGGCATTCTTGGTATAAGTTTCATATTTAT-GAAATATGGAGG-TAGAGTAATTTAATAATTCAATTTATTTTACTTTCAATATACTT---ATTCCAA--ACTG-TATATGGttatatttatat-agtaatcattaaaaat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13862954 137 -  14377064 AAATATGGCATTCTTGGTATAAGTTTCATATTTAT-GAAACATGGAGG-TAGAGTAATTTAATAATTCAATTTTTTTTACTTTCAATATCCTT---ATTCCAA--ACTG-TATATGGttatatttatat-agtaatcattaaaaat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101487 137 -   9889416 AAATATGGCATTCTTGGTATAAGTTTCATATTTAT-GAAACATGGAGG-TAGAGTAATTTAGTAATTCAATTTCTTTTACTTTCAATATCCTT---ACTCCAA--ACTG-CATATGGTTATATTTATAG-AGTAATCATTAAAAAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808239 123 -  38779656 --------------TGGTTTCAGTTTTCTATTTGT-GGAATATGGAGGTTGGATTAATTTATTTCTTTAA-TCCTTTTTTTCCTAATATCTCT---ATTCCAA--AATT-TTAATGGTTATGTTTATAT-GCCAATCATTAAAAAT
i otoGar3.GL873528          C 0 I 129
s canFam3.chr31              17978939 138 +  39895921 ATATGTGGTATTATTGTTTTAAGTTTCCTATTTATAGAACTATGGGATTTGGATTCATTTAATTTTGTAA--TAATTTATTTCCAGTGTCTCTTAAATTTCAATGATTGATTTATGatta--tttatat----aataatttaaaat
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2255332 689 +   3081153 M

a score=765037.000000
s hg38.chr21_GL383579v2_alt     22919  95 +    201197 GAAAAC----------------------------------------------------------------------------AGTTTGAAATTGTT--------------------------------------------------------------------------------atatataaatatg---------taatatataat-----a--------tatgacatcacacattaaatgtaaaatttaaaatgtatcaatcattttat
s panTro5.chr21               8645308  95 +  33445071 TAAAAC----------------------------------------------------------------------------AATTTGAAATTGTT--------------------------------------------------------------------------------ATATATAAATATG---------TAATATATAAT-----A--------TATGACATCACACATTAAATGTAAAATTTAAAATGTATCAATCATTTTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180827  95 +  46275980 TAAAAC----------------------------------------------------------------------------AATTTGAAATTGTT--------------------------------------------------------------------------------ATATATAAATATG---------TAATATATAAT-----A--------TATGACATCACACATTAAATGTAAAATTTAAAATGTATCAATCATTTTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163332  95 -  13858734 TAAAAC----------------------------------------------------------------------------AATTTGaaattgtt--------------------------------------------------------------------------------atatataaatatg---------taatatgtaat-----a--------tatgacatcacacattaaatgtaaaatttaaaatgtaTCAATCATTTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209482  90 +  32716333 TAAAAC----------------------------------------------------------------------------AATTTGAAATTGTT--------------------------------------------------------------------------------ATATATAAACATT---------TAAT-----AT-----A--------TACGACATCACACATTAAATGTAAACTTTAAAATGTATCAATCATTTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607228 103 - 185818997 TAAAAC----------------------------------------------------------------------------ATTTTGAAATTGTt--------------------------------------------------------------------------------atatataattata------atttaatttataatatataa--------tatgatataacatattacatgtacatttaaaaatgtatcaatcattttat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244200 103 - 192294377 taaaac----------------------------------------------------------------------------attttgaaattgtt--------------------------------------------------------------------------------atatataattata------atttaatttataatatataa--------tatgatataacatattacatgtacatttaaaaatgtatcaatcattttat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868109 103 -  30496662 taaaac----------------------------------------------------------------------------attttgaaattgtt--------------------------------------------------------------------------------atatataattata------atttaatttataatatataa--------tatgatataacatattacatgtacatttaaaaatgtatcaatcattttat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391495 103 +  21915920 TAAAAC----------------------------------------------------------------------------ATTTTGAAATTGTt--------------------------------------------------------------------------------atatataattata------atttaatttataatatataa--------tatgatataacatattacatgtacatttaaaaatgtatcaatcattttat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19893042 103 -  90373283 TAAAAC----------------------------------------------------------------------------ATTTTGAAATTGTT--------------------------------------------------------------------------------atatataaatata------atttaatttataatatagaa--------tatgatataacatattaaatgtacatttaaaaatgtatcaataattttat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3395998 103 +   7543664 TAAAAC----------------------------------------------------------------------------ATTTTGAAATTGTt--------------------------------------------------------------------------------atatataaatata------atttaatttataatatataa--------tatgatataacatattaaatgtacattaaaaaatgtatcaatcattttat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157581 103 -  13750039 TAAAAC----------------------------------------------------------------------------ATTTTGAAATTGTT--------------------------------------------------------------------------------atatataaatata------atttaatttataatatataa--------tatgatataacatattaaatgtacattttaaaatgtatcaatcattttat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435506  98 +  50472720 TAAAAC----------------------------------------------------------------------------AATTTGAAACTC----------------------------------------------------------------------------------atatataaatatt---------taatatattatttataa--------tatgacatgacatattaaatgtaaattttaaaatgtatcaatcattttat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8640831 100 +  13128814 taaaac----------------------------------------------------------------------------aatttgaaactctt--------------------------------------------------------------------------------atatataaatatt---------taatatattatttataa--------tatgacatgacatgttaaatgtaaattttaaaatatatcaatcattttat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13863091  98 -  14377064 taaaac----------------------------------------------------------------------------agtttaaaactc----------------------------------------------------------------------------------atatataaatatt---------taatatattatttataa--------tatgacatgacatattaaatataaattttaaaATGTTTCAATCATTTTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101624 100 -   9889416 TAAAAC----------------------------------------------------------------------------AATTTGAAACTCTT--------------------------------------------------------------------------------ATAAATAAATATT---------TAATATATTATTTATAA--------TATGACATGACATATTAAATGTAAATTTTAAAATTTATCAATAATTTTAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808491 270 -  38779656 aaaaactagctgggtttcatggtgggtgttgatagtaccagctacttaggaggttgaggcactagaatcagccgagcctaagagtttgaggttgctgtgaactatgacaatgtcacagcactctatccagggtgacagagtgagactctgtctcaaaacataaataaaTGCATTAAATAAATAAATAAAGCAATTATAGATTGTGTTATATATAAAGATCATTTAATATATAATATATTGAAGTTACATTTTAAAATGGAT---TTGTTTTAT
i otoGar3.GL873528          I 129 C 0
s canFam3.chr31              17979077  90 +  39895921 GGAAGC----------------------------------------------------------------------------AATTTGCaatt-----------------------------------------------------------------------------------atatataaatatc------atttaatatatGAT-----G--------TATGTCATCTGATA-TAAACCTACTTTTTACAATATG----TAATTTTAT
i canFam3.chr31             C 0 I 660
e dasNov3.JH578070            2255332 689 +   3081153 M

a score=481349.000000
s hg38.chr21_GL383579v2_alt     23014 51 +    201197 aaataaaattataTGTTTCACTATGACAGAGTACAGGAAGCCTTAGAAGAT
s panTro5.chr21               8645403 51 +  33445071 AAATAAAATTATATGTTTCACTATGACAGAGTACAGGAAGCCTTAGAAGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180922 51 +  46275980 AAATAAAATTATATGTTTCACTATGACAGAGTACAGGAAGCCTTAGAAGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163427 51 -  13858734 AAATAAAATTATATGTTTCACTATGACAGAGTACAGGAAGCCTTAGAAGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209572 51 +  32716333 AAATAAAATTATATGTTTCACTATGACAGAGTACAGGAAGCCTTAGAAGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607331 51 - 185818997 aaataaaattatatGTTTCACTATGACACAGTACAGGAAACCTTAGAAGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244303 51 - 192294377 aaataaaattataTGTTTCACTATGACACAGTACAGGAAACCTTAGAAGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868212 51 -  30496662 aaataaaattataTGTTTCACTATGACACAGTACAGGAAACCTTAGAAGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391598 51 +  21915920 aaataaaattatatGTTTCACTATGACACAGTACAGGAAACCTTAGAAGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19893145 51 -  90373283 aaataaaattataTGTTTCACTGTGACACAGTACAGGAAACCTTAGAAGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3396101 51 +   7543664 aaataaaattatatGTTTCACTATGACACAGTACAGGAAACCTTAGAAGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157684 51 -  13750039 aaataaaattatatGTTTCACTATGACACAGTACAGGAAACCTTAGAAGAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435604 49 +  50472720 aaataaaat--tatGATTCACCTCTACACAGTACAGGACACCTTAGAAAGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8640931 49 +  13128814 aaataaaat--tatGATTCACCTCTACACAGTACAGGACACCTTAGAAAGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13863189 49 -  14377064 AAATAAAGT--TATGATTCACCTCTACACAGTACAGGATACCTTAGAAAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101724 49 -   9889416 AAATAAAAT--TATGATTCACCTCTACATAGTACAGGACACCTTAGAAAGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808761 51 -  38779656 AAGTAAAAGTATAGTTTTTACTACTATATAATATAGGGAAACTGGGAAGAC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2255332 689 +   3081153 M
e canFam3.chr31              17979167 660 +  39895921 I

a score=167625.000000
s hg38.chr21_GL383579v2_alt     23065 13 +    201197 TTTTCACTAAATT
s panTro5.chr21               8645454 13 +  33445071 TTTTCACTAAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180973 13 +  46275980 TTTTCACTAAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163478 13 -  13858734 TTTTCACTAAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209623 13 +  32716333 TTTTCACTAAATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607382 13 - 185818997 TTTTCACTAAATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244354 13 - 192294377 TTTTCACTAAATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868263 13 -  30496662 TTTTCACTAAATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391649 13 +  21915920 TTTTCACTAAATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19893196 13 -  90373283 TTTTCACTAAATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3396152 13 +   7543664 TTTTCACTAAATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157735 13 -  13750039 TTTTCACTAAATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435653 13 +  50472720 TTTTCACCGAATT
i calJac3.chr21             C 0 I 325
s saiBol1.JH378168            8640980 13 +  13128814 TTTTCACTGaatt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13863238 13 -  14377064 TTTTCACTGAATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101773 13 -   9889416 TTTTCACTGAATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808812 13 -  38779656 TTTTCACTAAATT
i otoGar3.GL873528          C 0 I 1
s dasNov3.JH578070            2256025 13 +   3081153 TTTTCACTAATTA
i dasNov3.JH578070          M 689 C 0
e canFam3.chr31              17979167 660 +  39895921 I

a score=319850.000000
s hg38.chr21_GL383579v2_alt     23078 40 +    201197 AAAAATACTGGT-TTTTTA-GATATTTTATTATTCAA-CACTA
s panTro5.chr21               8645467 40 +  33445071 AAAAATATTGTT-TTTTTA-GATATTTTATTATTCAA-TACTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22180986 40 +  46275980 AAAAATATTGTT-TTTTTA-GATATTTTATTATTCAA-TACTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163491 41 -  13858734 AAAAATACTGTT-TTTTTA-GATATTTTATTATTCAACTACTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209636 40 +  32716333 AAAAATACTAGT-TTTTTA-GATATTTTATTATTCAA-TACTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607395 39 - 185818997 ACAAATGCTGTT-TTTTT--GATATTTTATTATTCAA-TACTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244367 39 - 192294377 ACAAATGCTGTT-TTTTT--GATATTTTATTATTCAA-TACTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868276 39 -  30496662 ACAAATGCTGTT-TTTTT--GATATTTTATTATTCAA-TACTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391662 39 +  21915920 ACAAATGCTGTT-TTTTT--GATATTTTATTATTCAA-TACTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19893209 39 -  90373283 ACAAATACAGCT-TTTTT--Gatattttattattcaa-tacta
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3396165 39 +   7543664 ACAAATGCTGTT-TTTTT--GATATTTTATTATTCAA-TACTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157748 39 -  13750039 ACAAATACTGGT-TTTTT--GATATTTTATTATTCAA-TACTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26435991 40 +  50472720 AAGAATATATAT-TTTTTA-GACATATTATTATTCAA-TGCTA
i calJac3.chr21             I 325 C 0
s saiBol1.JH378168            8640993 41 +  13128814 aaaaatatatatattttta-GGCATATTATTATTCAA-TGCTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13863251 40 -  14377064 AAAAATATATAT-TTTTTA-AGCATATTATTATTCAA-TGCTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101786 41 -   9889416 AAAAATATATATATATTTA-GGCATATTATTATTCAA-TGCTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808826 41 -  38779656 AAAGATATTATT-TTTGTATGTTTTTTTATTAATCAC-TACCT
i otoGar3.GL873528          I 1 C 0
s dasNov3.JH578070            2256038 39 +   3081153 AAAAATATTGTT-TTTGAA-GATACATTGTTATTCAA-TCCA-
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              17979167 660 +  39895921 I

a score=3487071.000000
s hg38.chr21_GL383579v2_alt     23118 317 +    201197 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATTATTGTCTAAGTGCATAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CATCATGAGTGAATGTATGCAAGTTAACACTGATTGATG----GTTCCCTAAAGcaaggattgactaactatggctagtataagccagatcatgtctgatccctggttttgtaaa----------------tcaagttttattgaaacttgattcaacacgcccagttacatgcctattatctcagatgcctttcacactacaatggcaaaattgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
s panTro5.chr21               8645507 317 +  33445071 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATTATTGTCTAAGTGCATAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CATCATGAGTGAATGTATGCAAGTTAACACTGATTGATG----GTTCCCTAAAGcaaggattgactaactatggctagtataagccagatcatgtctgctccctggttttgtaaa----------------tcaagttttattgaaacttgattcaacatgcccagttacatgcctattgtctcagatgcctttcacactacaatggcaaaattgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22181026 317 +  46275980 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATTATTGTCTAAGTGCATAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CATCATGAGTGAATGTATGCAAGTTAACACTGATTGATG----GCTCCCTAAAGcaaggattgactaactatggctagtataagccagatcatgtctgctccctggttttgtaaa----------------tcaagttttattgaaacttgattcaacatgcccagttacatgcctattgtctcagatgcctttcacactacaatggcaaaattgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163532 317 -  13858734 AATTCATA-TTTCATGA-GTTGCCTTATAGTGAGCAACTATTGTCTAACTGCATAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CATCATGAGTGAATGTATGCAAGTTAACACTGATTGATG----GTTCCCTAAAGcaaggattgactaactatggctagtataagccagatcatgtctgctccctggttttgtaaa----------------tcaagttttattgaaacttgattcaacatgcccagttacatgcctattgtctcagatgcctttcacattacaatggcaaaatcgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209676 317 +  32716333 AATTCATA-TTTCGTGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAGTGCATAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--TATCATGAGTGAATGTATACAAGTTAACAATGATTGATG----GTTCCCTAAAGcaagggttgactaaccatggctagtataagccagatcatgtctgctccctggttttgtaaa----------------tcaagttttattgaaagttgattcaacatgcccagttacatgcctattgtctaagatgcctttcacactacaatggcaaaattgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607434 313 - 185818997 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAATGCACAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CAGTATGAGTGAATGTATACAAGTTAACACTGATTGATG----GTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgcaaa----------------tcaagttttattgaaacacaac----catgcccagttacatgcctattgtctaagatgcctttcacactacaatggcaaaatcgtagcggttgca--aa--gga--ccatattgcccgcaaagtccataatGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244406 313 - 192294377 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAATGCACAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CAGTATGAGTGAATGTATACAAGTTAACACTGATTGATG----GTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgcaaa----------------tcaagttttattgaaacacaac----catgcccagttacatgcctattgtctaagatgcctttcacactacaatggcaaaatcgtagcggttgca--aa--gga--ccatattgcccgcaaagtccataatGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868315 313 -  30496662 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAATGCACAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CAGTATGAGTGAATGTATACAAGTTAACACTGATTGATG----GTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgcaaa----------------tcaagttttattgaaacacaac----catgcccagttacatgcctattgtctaagatgcctttcacactacaatggcaaaatcgtagcggttgca--aa--gga--ccatattgcccgcaaagtccataatGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13391701 313 +  21915920 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAATGCACAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CAGTATGAGTGAATGTATACAAGTTAACACTGATTGATG----GTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgcaaa----------------tcaagttttattgaaacacaac----catgcccagttacatgcctattgtctaagatgcctttcacactacaatggcaaaatcgtagcggttgca--aa--gga--ccatattgcccgcaaagtccataatGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19893248 313 -  90373283 tattcata-ttttatGG-GTTGTCTTATAGTGAGCAATCATTGTCTAAGTGCACAGCCAATCA-------------------------------------GGTTTCTGCCAGCATGA--A--CAGTATGAGTGAATGTATACAAGTTAACACTGATTGATG----CTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgaata----------------tcaagttttattgaaacacaac----catgcccagttacatgcctattgtctaagatgcctttcacactacaatggcaaaatcgtagtggttgca--aa--gga--ccatattgcctgcaaagAGCATAATGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3396204 329 +   7543664 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAATGCACAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CAGTATGAGTGAATGTATACAAGTTAACACTGATTGATG----GTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgtagacattttgctacctggttcaagttttattgaaacacaac----catgcccagttacatgcctattgtctgagatgcctttcacactacaatggcaaaatcgtagcggttgca--aa--gga--ccatattgcctgcaaagtccataatGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5157787 313 -  13750039 AATTCGTA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAGTGCACAGCCAATCA-------------------------------------GGTTTCCGCCAGCATGA--A--CAGTATGAGTGCATGTATACAAGTTAACACTGATTGATG----GTTCCCTAAAGcaagggttgactaactacggctagtgtaagccagatcatgtctgctacctggttttgtaaa----------------tcaagttttattgaaacacaac----catgcccagttacatgcctattgtctaagatgcctttcacattacaatggcaaaatcgtagtggttgca--aa--gga--ccatattgcctgcaaagcccataatgt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26436031 312 +  50472720 AATTCATA-TTTCATGG--TTGCCTTATAGTGAGCAATCATTGTCTAAGTGCATAGTTAATCA-------------------------------------GGTTTTCTCAATCATGA--A--CAGCATGAGTGAATGTCTACAACTTAACACTGACTGAGG----ATTCCCTAAAGcaaagattgactaagtatggctaaagtaagccagatgatgcttgctacccggttttgtaaa----------------taaagttttgttgaaactcaac----catgcccacttatgtgcctattgtctaagatgcctttcacactacaatggtgaaattgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8641034 344 +  13128814 AATTCATA-TTTCATGG-CTTGTCTTATAGTGAGCAATCATTGTCTAGGTGCATAGTTAATCAGGTTTTCTCAATCATGAACAGCATGAGTGAATGTATTGGTTTTCTCAATCATGA--A--CAGCATGAGTGAATGTATACAACTTAACACTGACTGAAG----ATTCCCTAAAGcaaagattgactaactatggctaatgtaagccagatgatgcttgctatctggttttgtaaa----------------taaagttttattgaaactcagc----catgcctacttacatacctattgtctaagatgcctttcacactacaatg------ttgtagtagttgca--ac--aga--ccattttgcctgcaaagccGATTATAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13863291 313 -  14377064 AATTCGTA-TTTCATGG-ATTGTCTTATAGTGAGCAATCATTGTCTAAGTGCATAGTTAATCA-------------------------------------GGTTTTCTCAATCATGA--A--CAGCATGAGTGAATGTATACAACTTAACACTGACTGACG----ATTCTCTAAAGcaaagattgactaactatggctaatgtaagccagatgatgcttgctacctggttttgtaaa----------------taaagttttattgaaactcaac----catgcccccttatatgcctattgtctaagatacctttcacactacaatgctgaaattgtagtagttgca--ac--aga--ccgtattgcctgcaaagcccaTTATAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9101827 312 -   9889416 AATTCATA-TTTCATGG-GTTGCCTTATAGTGAGCAATCATTGTCTAAGTGCATAGTTAATCA-------------------------------------GGTTTTCTCAATCATGA--A--CAGCATTGGT-AATGTATACAACTTAACACTGACTGACA----ATTCCCTAAAGcaaagattgactaactatggctaatgtaagccagatgatgcttgctacctggttttgtaaa----------------taaagttttattgaaactcaac----catgcccacttatatgcctatagtctaagatgcctttcacactacaatggtgaaattgtagtagttgca--ac--aga--ccatattgcctgcaaagcccaTTATAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24808867 302 -  38779656 AATTTATATTTTCTTTG-ATTGCTCTG-AGTGAGCAATCATTCTCTAAAGGCATGGCCAATGA-------------------------------------AGTTTCTTCCAGCATGA--A--TAT----AGTAAACGTATACAACTTGACGGTGATTAATG----AGTCCTTAAAGCAAgg-ttggctaactgtggctactgtgggttataacttgcctgccatctgctttcacagg----------------tgaaggtttctgagaacacatt----catgcctgctttcataacca-------agatgccttccatgtcacaatgacagagtta-agtagttatagcag--aga--ccataaaacctgcaaagcccaTTACAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17979827 318 +  39895921 AATTCAAC-TTTCATGGAGTTGACCTAGAGTGAGCAATGATTCTCTAAACATATGGTCAATGA-------------------------------------AGTTTCTTCCAGAGTGAACA--CAGTATAAGTGAATGTTTACAATTTAACACTAATTAGTGATTTATTTCCTAAAGcaggagttgactaaatatggctaatgtgggccaaatcatgtcttccatctctttttgtaaa----------------taaagttttgtttgaacacaag----aatgtcaatttgtttacctatcatctaagatacttttcacactatagtg--agagttg-agta-ctgca--acagaga--ctatattgcctgcaaagccCCATAGAG
i canFam3.chr31             I 660 C 0
s dasNov3.JH578070            2256077 304 +   3081153 AATTCATT-T----GGT-GTCATCATAGGATGAGCAATCATTCTCCAAGTA-ATAACCAATGA-------------------------------------ACCTTCTTCGAGGATGA--ATTCAGCATTAGTGAATGTACATAGTTTAACAACAACTAAGC----ATTGTACACCGTagtgttcagaaaactatggccagcatgggccaaattctacttgccac----ttttgtaaa--------------------gatttcttggcacagagc----catgcctatgtggctatgtattatttcatttacctttcaattcacaatgacaagaattgagtagtggcg--ac--agaggctatgttacctgaaaagactaaaatat
i dasNov3.JH578070          C 0 I 1034

a score=153039.000000
s hg38.chr21_GL383579v2_alt     23435 15 +    201197 AAAATAGTTGT---CAAC
s panTro5.chr21               8645824 15 +  33445071 AAAATAGTTGT---CAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22181343 15 +  46275980 AAAATAGTTGT---CAAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163849 15 -  13858734 AAAATAGTTGT---CAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9209993 15 +  32716333 AAAATAGTTGT---CAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607747 15 - 185818997 AAGATGCTTGT---CAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167244719 15 - 192294377 AAGATGCTTGT---CAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868628 15 -  30496662 AAGATGCTTGT---CAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13392014 15 +  21915920 AAGATAGTTGT---CAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19893561 15 -  90373283 AAAATAGTTGT---CAAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3396533 15 +   7543664 AAGATAGTTGT---CAAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5158100 15 -  13750039 AAAATAGTTGT---CAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26436343 15 +  50472720 AAAATAGTCAT---CAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8641378 15 +  13128814 AAAATAGTTGT---CAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13863604 15 -  14377064 AAAATAGTTGT---CAAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9102139 15 -   9889416 AAAATAGTTGT---CAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24809169 15 -  38779656 AAAATATTTTC---CAAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17980145 18 +  39895921 AGAAAATTTGCAAACACC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2256381 1034 +   3081153 I

a score=4086273.000000
s hg38.chr21_GL383579v2_alt     23450 371 +    201197 TCCT--TTGAGAGTAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGTAAAATGCCAGAGTGAGTATGAGTAACAAACAGAAATTGAGAAATGAATAAGAATGTGCA-------TTTTGTACAAAGCGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACataaataaaaattaaatataaa--tatgtgtgtaatatcaatttaaTAAACAGTCTGGGTCTATGAGCTTTTTCCCATTGTCCATGAGCTGGAACAAGCTTAGAGTGAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAACACACAAGTGGTTGTCTACATCAAATGTACACA
s panTro5.chr21               8645839 368 +  33445071 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCCAGAGTGAGCATGAGTAACAAACAGAAATTGAGAAATGAATAAGAATGTGCA-------TTTTGTACAAAGCGTTTTTCTGAATTGAGTAAATTAAG---ATTTCACCTGTAGAGTTACataaataaaaattaaatataaa--tatgtgtgtaatatcaatttaaTAAACAGTCTGGGTCTGTGAGCTTTTTCCCATTGTCCATGAGCTGGAATAAGCTTAGAGTGAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAACACACAAGTGGTTGCCTACATCAAATGTACATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22181358 368 +  46275980 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCCAGAGTGAGCATGAGTAACAAACAGAAATTGAGAAATGAATAAGAATGTGCA-------TTTTGTACAAAGCGTTTTTCTGAATTGAGTAAATTAAG---ATTTCACCTGTAGAGTTACataaataaaaattaaatataaa--tatgtgtgtaatatcaatttaaTAAACAGTCTGGGTCTGTGAGCTTTTTCCCATTGTCCATGAGCTGGAATAAGCTTAGAGTGAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAACACACAAGTGGTTGCCTACATCAAATGTACATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8163864 370 -  13858734 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATTCCAGAGTGAGCATGAGTAACAAACGGAAATTGAGAAATGAATAAGAATGTGCA-------TTTTGTACAAAGCGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACataaataaaaattaaatataaa--tatgtgtgtaatatcaatttaaTAAACAGTCTGGGTCTGTGAGCTTTTTCCCATT-TCCATGAGCTGAAACAAGCTTAGAGTGAAATAGT-TGCAGAACTATCCATGA-GG-CTTGACGGTTAAACACTATGGCCAACACACAAGTGGTTGTCTACATCAAATGTACACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9210008 368 +  32716333 TCCT--TTGAGAATAATCAAGAACTAAACAAACACAGAAAACAGTAATATTG---AACAATAAGCAAAATGCCAGAGTGAGCATGAGCAACAAATAGAAATTGAGAAATGAATAAGAATGTGCA-------TTTTGTACAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACATAAACAAAAATTAAATATAAA--TATGTGTGTAATACCAATTTAATAAACAGTCTGGGTCTGTGATCTTTTTCCCATTGTCCATGAGCTGGAACAAGCTTAGAGTGAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAACACACAAGTGGTTGTCTACATCAAATGTAGACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160607762 371 - 185818997 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCC--AGTGAGCATGAGTAACAACTAGAAATTGAGAAATGAATAAGATTGTGCA-------TTTTGTATAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACataaataaaaattaaatataaatatatgtgtataacatcaatttaaTAAACAGTTTGGGTCTGTGAGCTTTTTCCCATTGTCCATGGGCTGGAACAAGCTTAGAGTAAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAGCACAAAAGCGGTTGGGCATTGGTAATGGACACA
i rheMac8.chr3              C 0 I 13
s macFas5.chr3              167244734 371 - 192294377 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCC--AGTGAGCATGAGTAACAACTAGAAATTGAGAAATGAATAAGATTGTGCA-------TTTTGTATAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACataaataaaaattaaatataaatatatgtgtataacatcaatttaaTAAACAGTTTGGGTCTGTGAGCTTTTTCCCATTGTCCATGGGCTGGAACAAGCTTAGAGTAAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAGCACAAAAGCGGTTGGGCATTGGTAATGGACACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4868643 371 -  30496662 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCC--AGTGAGCATGAGTAACAACTAGAAATTGAGAAATGAATAAGATTGTGCA-------TTTTGTATAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACataaataaaaattaaatataaatatatgtgtataacatcaatttaaTAAACAGTTTGGGTCTGTGAGCTTTTTCCCATTGTCCATGGGCTGGAACAAGCTTAGAGTAAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTCAAACACTATGGCCAGCACAAAAGCGGTTGGGCATTGGTAATGGACACA
i macNem1.NW_012015021v1    C 0 I 13
s cerAty1.NW_012002954v1     13392029 370 +  21915920 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCC--AGTGAGCATGAGTAACAACTAGAAATTGAGAAATGAATAAGATTGTGCA-------TTTTGTATAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACataaataaaaattaaatataaat-tatgtgtataacatcaatttaaTAAACAGTTTGGGTCTGTGAGCTTTTTCCCATTGTCCATGGGTTGGAACAAGCTTAGAGTAAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAGCACAAAAGTGGTTGGGCATTGGTAATGGACACA
i cerAty1.NW_012002954v1    C 0 I 13
s chlSab2.chr2               19893576 371 -  90373283 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCC--AGTGAGCATGAGTAACAACTAGAAATTGAGAAATGAATAAGATTGTGCA-------TTTTATATAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACATAAATAAAAATTAAATATAAATATATGTGTGTAACATCAATTTAATAAACAGTTTGGGTCTGTGAGCTTTTTCCCATTGTCCATGGGCTGGAACAAGCTTAGAGTAAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCGAGCACAAAAGCAGTTGGGCATTGGCAATGGACACA
i chlSab2.chr2              C 0 I 13
s manLeu1.NW_012103476v1      3396548 371 +   7543664 TCCT--TTGAGAACAGTGAAGAACTAAACAAACACAGAAAACAGTAACATTGAACAACAATAAGCAAAATGCC--AGTGAGCGTGAGTAACAACTAGAAATTGAGAAATGAATAAGATTGTGCA-------TTTTGTATGAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACATAAATAAAAATTAAATATAAATATATGTGTGTAACATCAATTTAATAAACAGTTTGGGTCTGTGAGCTTTTTCCCATTGTCCATGGGCTGGAACAAGCTTACAGTAAAATAGT-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAGCACAAAAGCGGTTGGGCATTGGTAATGGACACA
i manLeu1.NW_012103476v1    C 0 I 13
s colAng1.NW_012120598v1      5158115 371 -  13750039 TCCT--TTGAGAATAATGAAGAACTAAACAAACACAAAAAACGGTAACATTGAACAACAGTAAGCAAAATGCC--AGTGAGCATGAGTAATAACTAGAAATTGAGAAATGAGTAAGATTGTACG-------TTTTGTACAAAGGGTTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGAGTTACATAAATAAAAATTAAATATAAATATATGTGTGTAACATCAATTTAATAAACAGTTTGCGTCTGTGAGCTCCATCCCATTGTCCATGGGCTGGAACAAGCTTAGAGTAAAATAGC-TGCAGAACTATCCATGA-GG-CTTGATGGTTAAACACTATGGCCAGCACAAAAGCGGTTGGGCATTGGCAATGGACACA
i colAng1.NW_012120598v1    C 0 I 13
s calJac3.chr21              26436358 373 +  50472720 TCCT--TTGAGAATAATGAAGAACTAAGCAAACACAGAAAACAGTAAAATTGAACAACAACAAGCAAAATGCCAGAGTGAGCTAGTATAACAAACAGAAATTGAGAAATAAATAGTAATGTACA-------TTTTATAACAAGGATTTTTCTGAATGGAGTAAATTAAGTAGATTTCACCTATAGGGTTACAGaaataaaaattaaattaatatGTATGTGTGTAACATTAATTTAATAACCAGTCTGGGTCTGTGAGCTTTGCCCCATTGTCCGTGGGCTGTAACAAGCTTAGAGTAAAGTAGT-TGCACAACTATCCATGA-GT-CTTCATGGATAAACACAATGCCCAACACAAAAGTGGTTGGACATTGGCAATGGACACA
i calJac3.chr21             C 0 I 13
s saiBol1.JH378168            8641393 368 +  13128814 TCCT--TTGAGAATAATGAAGAACTAAGCAAACACAGAAAGCAGTAACACTGAACAATAACAAGCAAAATGCCAGAGTGAGCCAGTATAACAAATAGAAATTGAGAAATAAATAATGATGTACA-------TTTTATAAGAAGGATTTTTCTGAGTTGAGTAAATTAAGTAGATTTCACCTGTAGGGTTACataaataaaaattaaattaatatGTATGTGTGTAACATCAATTTAATAAATAGTCTGGGTCTGTGAGCTTTTTCCCATTGTCCATGAGGTGTAACAAGTTTAG-----AGTAGT-TGCAGAACTATCCGTGA-GT-CTTCATGGATAAACAGGATGACCAACACAAAAATGGTTGGACATTGGCAATGGACACA
i saiBol1.JH378168          C 0 I 13
s cebCap1.NW_016107322v1     13863619 370 -  14377064 TCCT--TTGAGAATAAT---GAACTAAGCAAACACAGAAAACAGTAACATTGAACAATTACAAGCAAAATGCCAGAGTGAGCAAGTATAACAAATAGAAATTGAGAAATAAATAATAATGTACA-------TTTTATAAGAAGGATTTTTCTGATTTGAGTAAATTAATTAGATTTCACCTATAGGGTTACATAAATAAAAATTAAATTAATATGTATGTGTGTAACATCAATTTAATATATAGTCTGGGTCTGTGAGCTTTTTCCCAGTGTCCATGAAGTGTAACAAGTTTAGAGTAAAGTAGT-TGCAGAACTATCCATGA-GT-CTTCATGGATAAACACGATGACCAACACAAAAGTGGTTGGACATTGGCAATGGACACA
i cebCap1.NW_016107322v1    C 0 I 13
s aotNan1.NW_018487195v1      9102154 373 -   9889416 TCCT--TTGAGAATAATGAAGAACTAAGCAAACACAGAAAACAGTAACATTGAACAATAACAAGCAAAATGCCAGAGTGAGCAAGTATAACAAATAGAAATTGAGAAATAAATAATAATGTACA-------TTTTATAAGAAGGATTTTTCTGAATTGAGTAAATTAAGTAGATTTCACCTGTAGGTTTACATAAATAAAAATTAAATTAATGTGTATGTATGCAACATCAATTTAATAAATAGTCTGGGTCTGTGAGCTTTTGCCCATTGTCCATGAAGTATAACAAGTTTAGAGTAAAGTAGT-TGCAGAACTATCCATGA-GT-CTTCATGGATAAACACAATGACCAACACAAAAGTGATTGGACATTGGCAATGGGCACA
i aotNan1.NW_018487195v1    C 0 I 13
s otoGar3.GL873528           24809184 335 -  38779656 TTCTACTTGAGAATAGTGCAGAACTAGACAAACACAGATAATTGCAACATTGAACAACAGTGAA-GAAATTCTAGGAGAAGCATGACTAACAAATGGAACTTGAAAAA-------GAATATGCA-------TTTTATGTAAGAGATTCTTCT-AATTGAATAAAGTAAGTATATTTCCACT-TAGAGTTACATAAATGAAAATTATTTATAAACGCATGTGTGTAA-ATCAGTTT-----------------------------CCTATT-TTAATGAGCTGGAGCAAACTTAAAGTAAAAGAGTGGGGAGTATCATCCCAGG-GG-CTGAATGGTTCAACACCAGGACTAACACAAAAACAATTGTTTATTGGTGATGGACACA
i otoGar3.GL873528          C 0 I 14
s canFam3.chr31              17980163 366 +  39895921 TCCT--TTAAGGTTAGTAAAAAATTAAACAAGCTTGCAAAACAGAATCATTG---AACATAAAGCAGAATGCT--AGAGTTCATGAATAACAAATAGAAGTTGGAAATTGAACA-GAATATGCAAGGTAATTTTTGCACAAGGTATT-TTCTGAATTGAGTACACTGAGTATGCTTCAATTGTATAGTTACATAAATAAATGTTATTTATAAGTGTATATGTGCAACATTAATTTTATAA--AGTCTAGTTCCATGAGCTCTTTCTTATTGTCTCTGAGCTGGAGTAAGAATAAAG------AAT-TGCAGCATTATCCAGAAGGG-CTTGATGTTTAAACACTATGGTTAATCTAAGAGTGCTTGGTTATTGGCAATGGACATA
i canFam3.chr31             C 0 I 13
s dasNov3.JH578070            2257415 334 +   3081153 TTCT--TTGAGAATAGCACAAAATTA---AAGTACAG----------CATTAAACAACATCAAATAAAATGTTAGAGCTAGCATAAGTAACAAGTGGAAGTTGGAAAATGAATACGAATGTGCA-------TTTTGTACAAGGGATTTTTCTGAATTGAATAGTTTA---------------TAGATTTACATAAATGAAAATTATTTGTAGATGTATATGTGTAACAACATTTTCTGATACAGTCTGTTTCAATTGACTCCTCCTTATTGTGCATGAATTGGACCAAAGT------------GT-TACAGCATAACTCTTAT-GGTCTTGATGGTTAAGATCTATGACTAACATGAAAGTGATTGTTTATTGTCAATGAGCACA
i dasNov3.JH578070          I 1034 I 4

a score=193819.000000
s hg38.chr21_GL383579v2_alt     23821 40 +    201197 AATGAGTTCTAAACCTAAATGACTGACATGGTATCTCTGA
s panTro5.chr21               8646207 40 +  33445071 AATGAGTTCTAAACCTAAATGACTGACATAGTATCTCTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22181726 40 +  46275980 AATGAGTTCTAAACCTAAATGACTGACAGAGTATCTCTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8164234 40 -  13858734 AATGAGTTGTAAACCTAAATGACTGACATAGTATCCCTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9210376 40 +  32716333 AATGAGTTCTAAACCTAAATCACTGACATAGTATCACTGA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167245105 13 - 192294377 --------TCAAATTTAGCCA-------------------
i macFas5.chr3              C 0 C 0
s chlSab2.chr2               19893960 40 -  90373283 AATGAGTTCTAAACCTAAATGACTGACATAGTATCTCTGA
i chlSab2.chr2              I 13 C 0
s colAng1.NW_012120598v1      5158499 40 -  13750039 AATGAGCTCTAAACCTAAACGACTGACAAAGTATCTCTGA
i colAng1.NW_012120598v1    I 13 C 0
s calJac3.chr21              26436744 40 +  50472720 AACGAGTTCTAAATCTAAACAACTGACATACTATCTCtaa
i calJac3.chr21             I 13 C 0
s saiBol1.JH378168            8641774 40 +  13128814 AATGAGTTCTAAATCTAAACAACTGACATACTAGATCTAA
i saiBol1.JH378168          I 13 C 0
s cebCap1.NW_016107322v1     13864002 40 -  14377064 AATGAGTTCTAAATCTAAACAACTCACATACTATCTCTAA
i cebCap1.NW_016107322v1    I 13 C 0
s aotNan1.NW_018487195v1      9102540 40 -   9889416 AATGAGCTCTAAATCTAAACAACTGACATACTATCTCTAA
i aotNan1.NW_018487195v1    I 13 C 0
s otoGar3.GL873528           24809533 40 -  38779656 GTTGAGTTCTAAATCTGAATGTCTGACATAAGGCCTCTGA
i otoGar3.GL873528          I 14 C 0
s canFam3.chr31              17980542 40 +  39895921 AAGGAGCTCTATATCTGAGAGTCTGGCATAGCATCTCTGA
i canFam3.chr31             I 13 C 0
s dasNov3.JH578070            2257753 33 +   3081153 AATAATT-----ATTTGAGT--CTCATATAATATCCACAA
i dasNov3.JH578070          I 4 C 0
e cerAty1.NW_012002954v1     13392399 13 +  21915920 I
e macNem1.NW_012015021v1      4869014 13 -  30496662 I
e rheMac8.chr3              160608133 13 - 185818997 I
e manLeu1.NW_012103476v1      3396919 13 +   7543664 I

a score=4201105.000000
s hg38.chr21_GL383579v2_alt     23861 374 +    201197 AATCATTAAATTATTTAAAACCGTGTAAG-CCCCAAGAACT----------TTATAACTGTAAATGTCAAGAAAGGTCCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGACTTTTCATCA---------AGGGCAGCTCAACCTCAACAAGTAAGGTCTTCCGTTGCTGAACAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGGTTTTTATTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGCACAGGG-CC-TAGCCTTGAGGATCCAGTGTCCACACTATTGGCATCCTTTCTTAAGTAAGAGGAAGAAA-TTTGAAGCTAATAGACTCCAATGAGACCTACTGTG--------AGTTCATTCTGTAATCTATTTACATTATTTT
s panTro5.chr21               8646247 374 +  33445071 AATCATTAAATTATTTAAAACCGTGTAAG-CCCCAAGAACT----------TTATAACTGTAAATGTCAAGAAAGGTCCCTGGCAATAGTTGTGGGATCTTTAGGGCTTTTAATGACTTTTCATCA---------AGGGTAGCTCAACCTCAACAAGTAAGGTCTTCCGTTGCTGAACAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGGTTTTTATTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGCACAGGG-CC-TAGCCTTGAGGATCCAGTGTCCACACTATTGGCATCCTTTCTTAAGTAAGAGGAAGAAA-TTTGAAGCTAATAGACTCCAATGAGACCTACTGTG--------AGTTCATTCTGTAATCTATTTACATTATTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22181766 374 +  46275980 AATCATTAAATTATTTAAAACCGTGTAAG-CCCCAAGAACT----------TTATAACTGTAAATGTCAAGAAAGGTCCCTGGCAATAGTTGTGGGATCTTTAGGGCTTTTAATGACTTTTCATCA---------AGGGTAGCTCAACCTCAACAAGTAAGGTCTTCCATTGCTGAACAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGGTTTTTATTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGCACAGGG-CC-TAGCCTTGAGGATCCAGTGTCCACACTATTGGCATCCTTTCTTAAGTAAGAGGAAGAAA-TTTGAAGCTAATAGACTCCAATGAGACCTACTGTG--------AGTTCATTCTGTAATCTATTTACATTATTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8164274 374 -  13858734 AATCATTAAATTATTTAAAACTGTGTAAG-CCGCAAGAACT----------TTATAACTGTAAATGTCAAGAAAGGTCCCTGGCAATAGTTGTGGGTTCTTTAGGTCTTTTAATGACTTTTCATCA---------AGGGTAGCTCAACCTCAACAAGTAAGGTCTTCCGTTGCTGAACAGAAGCAACAGTTTCTGTTGTTTTAATTAATCCCATTGGTTTTTATTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGCACAGGG-CC-TAGCCTTGAGGATCCAGTGTCCACACTATTGGCATCCTTTCTTAAGTAAGAGGAAGAAA-TTTGAAGCTAATAGACTCCAATGAGACCTACTGTG--------AGTTCATTCTGTAATCTATTTACATTATTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9210416 368 +  32716333 AATCATTAAGTTATTTAAAACAGTGTAAG-CCCCAAGAACT----------TTATAACTGTAAATGTCAAGAAAGGTCCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGACTTTTCATCA---------AGGGTAGCTGAAGCTCAACAAGTAAGATCTTCTGTTCCTGAACAGAAGCA--AGTTTCTGTTGTTTTAATTAATCCCATTGGTTTTTTTTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGCACAAGG-CC-TAACCTTGAGGATCCAGTGTCCACACTATTGGCATCCTTTCT----TAAGAGGAAGAAA-TTTGAAGCTAATAGACTCCAATGAGACCTACTGTG--------AGTTCATTCTATAATCTATTTGCATTATTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160608146 373 - 185818997 AATGATTAAATTATGTAAAACAGTGTAAG-CCCCAAGAACT----------TTGAAACTGTAAATGTCAAGAAATGGCCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGAC-TTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGTTTTTTGTTATAGATCCCTTGACAACAGTTTGATTTAAGAGTTGCACAGGG-CC-TAGCGTTGAGGGTCCAACATCCACACTATTGGCATCCTTTGTTAAGTAGGAGGAAGAAA-TTTGAAGCTAATAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCATTATTTT
i rheMac8.chr3              I 13 C 0
s macFas5.chr3              167245118 373 - 192294377 AATGATTAAATTATGTAAAACAGTGTAAG-CCCCAAGAACT----------TTGAAACTGTAAATGTCAAGAAATGGCCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGAC-TTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGTTTTTTGTTATAGATCCCTTGACAACAGTTTGATTTAAGAGTTGCACAGGG-CC-TAGCGTTGAGGGTCCAACATCCACACTATTGGCATCCTTTGTTAAGTAGGAGGAAGAAA-TTTGAAGCTAATAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCATTATTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4869027 373 -  30496662 AATGATTAAATTATGTAAAACAGTGTAAG-CCCCAAGAACT----------TTGAAACTGTAAATGTCAAGAAATGGCCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGAC-TTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGTTTTTTGTTATAGATCCCTTGACAACAGTTTGATTTAAGAGTTGCACAGGG-CC-TAGCGTTGAGGGTCCAACATCCACACTATTGGCATCCTTTGTTAAGTAGGAGGAAGAAA-TTTGAAGCTAATAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCATTATTTT
i macNem1.NW_012015021v1    I 13 C 0
s cerAty1.NW_012002954v1     13392412 373 +  21915920 AATGATTAAATTATGTAAAACAGTGTAAG-CCCCAAGAACT----------TTGTAACTGTAAATGTCAAGAAATGACCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGAC-TTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGTTTTTTGTTATAGATCCCTTGACAACAGTTTGATTTAAGAGTTGCACAGGG-CC-TAGCGTTGAGGGTCCAACGTCCACACTATTGGCATCCTTTGTTAAGTAGGAGGAAGAAA-TTTGAAGCTAATAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCATTATTTT
i cerAty1.NW_012002954v1    I 13 C 0
s chlSab2.chr2               19894000 374 -  90373283 AATCGTTAAATTATGTAAAACAGTGTAAG-CCCCAAGAACT----------TCGTAACTGTAAATGTCAAGAAAGGGCCCTGGCAATAGTTGTGGGTTCTTTAGCGCTTTTAATGACTTTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATTAGTCTCATTGTTTTTTGTTATAGATCCCTTGACAATAGTTTGATTTAGGAGTTGCACAGGG-TC-TAGGCTTGAGGGTCCAACGTCCACACTATTGGCATCCTTTCTTAAGTAGGAGGAAGAAA-TTTGAAGCTAATAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCattatttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3396932 373 +   7543664 AATGATTAAATTATGTAAAACAGTGTAAG-TCCCAAGAACT----------TTGTAACTGTAAATGTCAAGAAATGGCCCTGGCAATAGTTGTGGGTTCTTTAGGGCTTTTAATGAC-TTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGTAGAAGCAACAGTTTCTGTTGTTTTAATTAACCCCATTGTTTTTTGTTATAGATCCCTTGACAACAGTTTGATTTAAGAGTTGCACAGGG-CC-TAGCGTTGAGGGTCTAACGTCCACACTATTGGCATCCTTTGTTAAGTAGGAGGAAGAAA-TTTGAAGCTAATAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCATTATTTT
i manLeu1.NW_012103476v1    I 13 C 0
s colAng1.NW_012120598v1      5158539 375 -  13750039 AATCGTTAAATTATGTAAAACAGTGTAAGCCCCCAAGAACT----------TTGTAACTGTAAATGTCAAGAAAGGGCCCTGGCAGTAGTTGTGGGTTCTTTAGGGCTTTTAATGACTTTTCATCA---------AGGGTAGCTCAAGCTCAACAAGTAAGGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATTAATCCCATTGTTTTTTGTTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGCACAGGG-TC-TCGGCTTGAGGGTCCAACGTCCACACTATTGGCATCCTTTCTTAAGTAGGAGGAAGAAA-TTTGAAGCTAACAGAATCCAATGAGATCTATTGTG--------AGTTCATTCTGTAATCTATTTGCATTATTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26436784 371 +  50472720 aattatttaattatttaaaaCAGTGTAAG-CCCCAAGAACT----------TTATAACTGTAAATGTAAAGATAGGTCCCTGGCAATAGTTGTGGGGCCTGTAGGGTCTTTAATTACTTTTCGTCA---------ATGGTAGCTGAAGCTCAACAAGAAAAGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTTTGTTGTTTGAATGAATCCCATTCTTTTATATTATAGATCTCTTAACAACTGTTTGATTTAGGAGTTGAACAGGA-CC-TAGCCTTGAATCTTCAACATCCACACTATTGGCATCTTTTCTT---TAGGAGGAAGAAA-TTTGAAGCTAATACAATCTGATAAAACCTATTGTG--------AGTTCATTCTGTACTCTATCTGCattatttt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8641814 379 +  13128814 AATCATTAAATTATTTAAAACAGTGTAAG-TCCCAAGAACT----------TTATAACTGTAAATGTCAAGAAAGGTCCCTGGCAATAGTTGTGGGGTCTGTAGGGTTTTTGATTACTTTTCATCA---------ATGACAGCTGAAGCTCAACAAGCAAAGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTCTGTTGTTTTAATGAATCCCATTCTTTTATATTATAGATCCCTTGACAACAGTTTGATTTAGGAGTTGAAGAGGG-TC-GGGTCTTGAAGGTTCAACATCCACACTATTGGCATCCCTTCTT---TAGGAGGAAGAAA-TTTGAAGCTAATACAGTCTGGTAAAATCTACTGTGACTTTATTAGATTATTCTGTAATCTATttgcattatttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13864042 371 -  14377064 AATCATTAAATTATTTAAAACAGTGTAAG-CCCCAAGAACT----------TTATAAACATAAATGTCAAGAAAGGTCCCTGGCAATAGTTATTGGGTCTGTAGGGTTTTTAATTACTTTTCATCC---------ATGGTAGCTGAAGCTCAACAGGCAAAGTCTTCTGTTGCTGAACAGAAGCAACAGTTTTTGTTGTTTTAACGAATCCCATTCTTTTTtgttatagatcccttgacaacagcttgatttaggagctgaacaggg-cc-tagccttgaagattCAACATTCACACTATTGGCATCCTTTCTT---TAGGAGGAAGAAA-TTTGAAGCTAATACAATCTGATAAAATCTACTGTG--------AGTTCATTCTGTAGTCTATTTGCATTATTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9102580 371 -   9889416 AATCATTGAATTATTTAAAACAGTGTAAG-CCCCAAAAACT----------TTATAACTGTAAATATCAAGAAAGGTCCCTGGCAATAGTTGTGGGGTCTGTAGGGTTTTTAATTACTTTTCATCA---------ATGGTAGCTGAAGCTCAACAAGCAAAGTCTTCTGTTGCTGAGCAGAAGCAACAGTTTTTGTTGTTTTAATGAATCCCATTCTTTTATATTATAGATCCCTTGGCAACAATTTGATTTAGGAGTTGAACAGGG-CC-TAGCCTTGAAGGTTCAACATCCACACTATTGGCATCCTTTCTT---GAGGAGGAAGAAA-TCTGAAGCTAATACACTCTGATAAAATCTACTGTG--------AGTTCATTTTGTAATCTATTTGCATTATTTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24809573 348 -  38779656 AATTAGTAAATTATTTAACACAGTATATT-CCATAAGAACT----------GTATAACTGTAAATGTCAAGACAAAGCCCTGG---TAATTGTGGGCTTAGAAGGGCTTCTCATCACTTTGCAT-----------GGGGAAG----AGTTCAACAGG-AAGGCCTTCTGATGCT---------CCGCAGTGCCTCTTGCTTTAATGAATACCATTGGTTTTTGTCTGAGGTCTCTTGGAGGAGGTTTGATTCAC---TTCCACAGGGCCC-TCCTCCTGAGGGTCCAATACCCACACCATTGACATCCTTTCCTACGTAAGGGAAAGAAATTTTGAAGCCAATACAATCCTATAAACCCTAACAT---------AGTACATTCTGTGATCTATTTACCCT-----
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17980582 370 +  39895921 AATCAGTTAGATGTTTAGGACAGCAAAAT-ACCTAAGGACC----------TTATATGTGTAAATATCAAGAGACGTCCATAGCAAGACTCACGGTTTTTGAAGGACTTCTCATCGCTTTACAGTAGCACACTTTAGAGTAGCTCAAGCTCAACAAGTAAGGCCTTTCCTTACTGAGC---------AATGTCTCTTGTTTTAATGAATTTCATTGGTTTTTGACACAGGTTCCTTGAGAGTAGTGTAATCTAAGAGTTACACAGGGCCC-TATCCCTGAGGATCCAGCATTCACAACACTAACGTCAATTC-----AAAGGGGAAGAAA-TTTGAAGCTAATGCAACCCAGTGAAACTTACTGTG--------AATCCATTCTTTGGTCCATTTGTACTATTTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2257786 368 +   3081153 AATCAGTAACATGTTAAATGGAGAAAAGT-CTCCAAGAACTATTAATGTACTTTTAACTGTAAATTTGAAAAGAAGTCTGTGACATCAGATATGGATTCTGGAGGGCTTTCAACAA---TTCATCT---------AGGGTAACTCAAGTTCAACAAGTAAGGTATTCCTTTGCTGAGC---------AGTGCCTTTCTATTTAATGAGTCT--TTCTTTTTTACTG-GGGTCTTTTGAAAA--GTGTTATCTTGGAGTTGCCCATGG-TCACGGCCCAGAGTAGCAACTGTCTATGTCACTGACATCTTTTCTTAAGTATATAAAAGAGA-TTTGAAGCTAATGTAATCCAAAGAAATCTATTATG--------AATCCATCTTGTTATTTATTTGCACTATTTT
i dasNov3.JH578070          C 0 C 0

a score=463471.000000
s hg38.chr21_GL383579v2_alt     24235 101 +    201197 GTTTATATTTATATTATACTA-TTTATTATTTT----TATTATATCTGCATAAATTA-------TATAT--------------TATATATA------------------AATTATATATATA------AT---------------------TTATTATTACATTTTAATTAT
s panTro5.chr21               8646621 102 +  33445071 ATTTATATTTATATTATACTA-TTTATTATTTT-ATTTATTAAATCTGCATAAATTA-------TATAT--------------TATATATA------------------AATTATATATA--------AT---------------------TTATTATTACATTTTAATTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22182140 102 +  46275980 ATTTATATTTATATTATACTA-TTTATTATTTT-ATTTATTAAATCTGCATAAATTA-------TATAT--------------TATATATA------------------AATTATATATA--------AT---------------------TTATTATTACATTTTAATTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8164648 105 -  13858734 ATTTATATTTATATTATACTA-TTTACTATTTTTATTTATTATATCTGCATAAATTA-------TATAT--------------TATATATA------------------AATTATATATATA------AT---------------------TTATTATTACATTTTAATTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9210784 100 +  32716333 ATTTATATTTATAT-----TA-TTTATTATTTTTATTTATTATATCTGCATAAATTA-------TATAT--------------TATATATA------------------AATTATAAATATA------AT---------------------TTATTATTACATTTTAATTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160608519 102 - 185818997 ATTTATATTTATATGATACTGTTTTATTAT-----TTTATTATATCTACATAAATTA-------TATAT----------------TATATA------------------AATTATATATATA------AT--------------TTA----TTATTATTACATTTTAATTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167245491 107 - 192294377 ATTTATATTTATATGATACCGTTTTATTATTTTTATTTATTATATCTACATAAATTA-------TATAT----------------TATATA------------------AATTATATATATA------AT--------------TTA----TTATTATTACATTTTAATTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4869400 107 -  30496662 ATTTATATTTATATGATACTGTTTTATTATTTTTATTTATTATATCTACATAAATTA-------TATAT----------------TATATA------------------AATTATATATATA------AT--------------TTA----TTATTATTACATTTTAATTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13392785 107 +  21915920 ATTCATATTTATATGATACTGTTTTATTATTTTTATTTATTATAGCTACATAAATTA-------TATAT----------------TATATA------------------AATTATATATATA------AT--------------TTA----TTATTATTACATTTTAATTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19894374 113 -  90373283 gtttatatttatatgatactgttttattatttttatttattatatctacataaattatatattctatat----------------tctata------------------aattatatatat-------at--------------aat----ttattattacattttaattac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3397305 107 +   7543664 ATTTATATTTATATGATACTGTTTTATTATTTTTATTTATTATATCTACATAAATTA-------TATAT----------------TATATA------------------AATTATATATATA------AT--------------TTA----TTATTATTACATTTTAATTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5158914 114 -  13750039 GTTTATATTTATATGATACTGTTTTATTATTTTTATTTAATATATCTACATAAATTATATACTATATAT----------------TCTATA------------------AATTATATATATA------AT--------------TTA----TTATTATTACATTTTAATTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26437155 113 +  50472720 aattatatatgtat-----tattttattatttttatttattatagccac-aaaattg-------tatattcataaattatagttatatata---------------atgaattatatatgcataaattat-------------------------------attttaattat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8642193 157 +  13128814 aattatatgtatat-----tattttattatttttatttattatattcacaaaaatta-------tatatgcataaattatagttatatatg---aattatacatgcataaattatatatacataaattataaatttatacataaatatgatttattattacattttaattat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13864413 136 -  14377064 AATTACATG----------TATTTTATTATTTTTATTTATTATATCCACAAAAATTA-------TATATGCATAAAT--TAGTTATATATAATGAATTATATATGCATAAATTATATATACATAAATTAT--------------ATATGATTTATTAC---ATTTTAATTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9102951 142 -   9889416 AATTATATGTATAT-----TATTTTATGATT----TTTAGTATATCCACAAAAATTA-------TATATGCATAAATTATAGTTATATATAATGAATTATATATGCATAAATTATATATACATAAATTAT--------------ATATGATTTATTATTACATTTTAATTAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24809921  10 -  38779656 ----------------------------------------------------------------CCTAC----------------------------------------AAT----------------GC------------------------------------------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2258154  15 +   3081153 -----------------AATGCTTCATTGCTA--------------------------------------------------------------------------------------------------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              17980952   0 +  39895921 C

a score=10462007.000000
s hg38.chr21_GL383579v2_alt     24336 837 +    201197  
s panTro5.chr21               8646723 837 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22182242 837 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8164753 835 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9210884 840 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160608621 843 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167245598 843 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4869507 848 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13392892 843 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19894487 865 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3397412 846 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5159028 838 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26437268 841 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8642350 854 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13864549 842 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9103093 835 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24809931 854 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17980952 839 +  39895921  
i canFam3.chr31             C 0 I 195
s dasNov3.JH578070            2258169 845 +   3081153  
i dasNov3.JH578070          C 0 C 0

a score=4036055.000000
s hg38.chr21_GL383579v2_alt     25173 381 +    201197 GATACTC-ATGTGC------------------------------------------------------------CTAAAACCATGTAAGTATGA-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAAATTTTAAAAT--ATGTGTTCTGAATCTTAAATAATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTAAATC-----------------TTAATTAAAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACTATGCTT----CTAATGGTTAAAAAAGACATAA---AATAAAC--CAAAGG--AAAAATGAGCTTTTATTATCATTATGGTATATTACCATGTTGAATTTTAA-ATTTATGAACTAATATCAATTT-TCTCTCTTTAAAAATAATATGCATAA---AATTTTTCCTTCTTAATTGGTTT-AAA-A-TCTCAGGAA
s panTro5.chr21               8647560 381 +  33445071 GATACTC-ACGTGC------------------------------------------------------------CTAAAACCATGTAAGTATGA-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAAATTTTAAAAT--ATGTGTTCTGAATCTTAAATAATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTAAATC-----------------TTAATTAAAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGGACTATGCTT----CTAATGGTTAAAAAAGACATAA---AATAAAC--CAAAGG--AAAAATGAGCTTTTATTATCATTATTATATATTACCATGTTGAATTTTAA-ATTTATGAACTAATATCAATTT-TCTCTCTTTAAAAATAATATGCATAA---AATTTTTCTTTCTTAATTGGTTT-AAA-A-TCTCAGGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183079 381 +  46275980 GATACTC-ACGTGC------------------------------------------------------------CTAAAACCATGTAAGTATGA-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAAATTTTAAAAT--ATGTGTTCTGAATCTTAAATAATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTAAATC-----------------TTAATTAAAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGGACTATGCTT----CTAATGGTTAAAAAAGACATAA---AATAAAC--CAAAGG--AAAAATGAGCTTTTATTATCATTATTATATATTACCATGTTGAATTTTAA-ATTTATGAACTAATATCAATTT-TCTCTCTTTAAAAATAATATGCATAA---AATTTTTCTTTCTTAATTGGTTT-AAA-A-TCTCAGGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8165588 379 -  13858734 GATACTC-ATGTGC------------------------------------------------------------CTAAAACCATGTAAGTATGA-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAAATTTTAAAAT--ATGTGTTCTGAATCTTAAATAATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTAAATC-----------------TTAATTAAAATTTGCTGAATATACTATAGTTTTGCCTC--AAACAGACATATAAAGCACTATGCTT----CTAATGGTTAAAAAAGACATAA---AATAAAC--CAAAGG--AAAAATGAGCTTTTATTATCATTATTGTATATTACCATGTTGAATTTTAA-ATTTATGAACTAATACCAATTT-TCTCTCTTTAAAAATAATATGCATAA---AATTTTTCTTTCTTAATTGGTTT-AAA-A-TATCAGGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9211724 381 +  32716333 GATACTC-ATGGGC------------------------------------------------------------CTAAAACCATGTAAGTATGA-TATGAGAC-TTT-TTACGTGCTA--TTATCAAAAATAAATTTTTAAAAT--ATGTGTTCTGAATCTTAAATAATG----TTTTGCCAAGGTTTTAAG-TTTTCATAGATTTTCTTCTTTAAATC-----------------TTAATTAAAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACTATGCTT----CTAATGGTTAAAAAAGACATAA---AATAAAC--CAAAGG--AAAAATTGGCTTTTATTATCATTATTGTATATTACCATGTTGAATTTTAA-ATTTATGAACTAATATCAATTT-TCTCTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATTGGTTT-AAA-A-TCTCAGGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160609464 375 - 185818997 CATACTC-ATATGC------------------------------------------------------------CTAAAA-CATGTAAGTATGG-TATGAGAC-TTT-TTATGTACTA--TTATCAAAAATAAATTTTTAAAAT--ATGTGTTCTGAATCT----TAATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTGAATC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----CTAATGGTTAAAAAAGACATAA---AATTAAC--CAAAGG--AAAAATGAGATTTTATTATCATTATAGTATATTACCATGTTGAATTTGAA-ATTTATAAACTAATACCAATTT-TCTCTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATTGGTT--AAA-A-TCTCAGGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167246441 375 - 192294377 CATACTC-ATATGC------------------------------------------------------------CTAAAA-CATGTAAGTATGG-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAATTTTTAAAAT--ATGTGTTCTGAATCT----TAATG----TTTTGCCAAGGTTTTAAG-TTTTCATCGATTTTCTTCTCTGAATC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----CTAATGGTTAAAAAAGACATAA---AATTAAC--CAAAGG--AAAAATGAGATTTTATTATCATTATAGTATATTACCATGTTGAATTTGAA-ATTTATAAACTAATACCAATTT-TCTGTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATTGGTT--AAA-A-TCTCAGGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4870355 375 -  30496662 CATACTC-ATATGC------------------------------------------------------------CTAAAA-CATGTAAGTATGG-TATGAGAC-CTT-TTATGTGCTA--TTATCAAAAATAAATTTTTAAAAT--ATGTGTTCTGAATCT----TAATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTGAATC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----CTAATGGTTAAAAAAGACATAA---AATTAAC--CAAAGG--AAAAATGAGATTTTATTATCATTATAGTATATTACCATGTTGAATTTGAA-ATTTATAAACTAATACCAATTT-TCTCTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATTGGTT--AAA-A-TCTCAGGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13393735 376 +  21915920 CATACTC-ATATGC------------------------------------------------------------CTAAAA-CATGTAAGTATGG-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAATTTTTTAAAT--ATGTGTTCTGAATCT----TAATG----TTTTGCCAAGGTTGTAAGTTTTTCATGGATTTTCTTCTCTGAATC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----CTAATGGTTAAAAAAGACATAA---AATTAAC--CAAAGG--AAAAATGAGATTTTATTATCATTATAGTATATTACCATGTTGAATTTGAA-ATTTATAAACTAATACCAATTT-TCTCTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATCGGTT--AAA-A-TCTCAGGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19895352 379 -  90373283 CATACTC-GTGCGC------------------------------------------------------------CTAAAA-CATGTAAGCATGG-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATACATTTTTAAAAT--ATGTGTTCTGAATCTCAAATAATG----TTTTGCAAATGTTTTAAG-TTTTCATGGATTTTCTTCTCTGAATC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----CTAATGGTTAAGAAAGACATAA---AATTAAC--CAAAGG--AAAAATGAGATTTTATTATCGTTATTGTATATTACCATGTTGAATTTGAA-ATTTATAAACTAATATCAATTT-TCTCTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATTGGCT--AAA-A-TCTCAGGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3398258 375 +   7543664 CATACTC-ATATGC------------------------------------------------------------CTAAAA-CATGTAAGTATGG-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATAAATTTTTAAAAT--ATGTGTTCTGAATCT----TGATG----TTTTGCCAAGGTTTTAAG-TTTTCATGGATTTTCTTCTCTGAATC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----TTAATGGTTAAAAAAGACATAA---AATGAAC--CAAAGG--AAAAATGAGATTTTATTATCATTATTGTATAGTACCATATTGAATTTGAA-ATTTATAAACTAATATCAATTT-TCTCTCTTTAAAAATAATATGTATAA---AATTATTCATTTTTAATTGGTT--AAA-A-TCTCAGTAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5159866 380 -  13750039 CATACTC-ATGCGC------------------------------------------------------------CTAAAA-CATGTAAGCATGG-TATGAGAC-TTT-TTATGTGCTA--TTATCAAAAATACATTTTTAAAAT--ATGTGTTCTGAATCTTAAATAATG----TTTTGCAAAGGTTTTAAG-TTTTCATAGATTTTCTTCTCTGAAAC-----------------TTCATTAGAATTTGCTGAATATACTATAGTTTTGCCTCAGAAACAGACATATAAAGCACGATCCTT----CTAATGGTTAAAAAAGACATAA---AATTAAC--CAAAGG--AAAAATGAGATTTTATTATCATTATTGTATATTACCGTGTTGAATTTGAA-ATTTATAAACTAATACCAATTT-TCTCTCTTTAAAAATAATATGCATAA---AATTATTCATTTACAATTGGGTA-AAA-A-TCTCAGGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26438109 378 +  50472720 GATACTC-ATGTGC------------------------------------------------------------CTAAAGCCATGTAATTGTGG-TATGAGAC-TTT-TTATGTGtta--ttatcaaaaataaatttttaaaat--atGTGTTTTGAATCTTAATCAG--------TTGCTAAGGTTTTAAG-TTTTTATAGATTTTCTTTTCTAAATC-----------------TTGATTAAAATTTGCTGACTATACTATAATTTTGCCTCAGAAACAGACATATAAAGCACTATCCTT----CAAATGGTTAAAAAATACATAA---AATGAAC--CAAAGG-AAAAAATGAGACTTTTATATCATTATTATATATTATCATGTTCAATTTTAA-ATTCATTGACTAATATCAATTT-TATCTCTTTAAAATTAATATGTATAA---AATTATTCATTCTTAACTGGTTT-AAA-A-TCTCAGGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8643204 380 +  13128814 GATACTC-ATGCGC------------------------------------------------------------CTAAAGCCATGTAAGTGTGG-TATGAGAC--tt-ttatatgtta--ttatcaaaaataaatttttaaaat--aCGTGTTTTGAATCTTAAACAATG----GTTTGCTAAGTTTTTAGG-TTTTCATAGATTTTCTTCTCTAAATC-----------------TTAATTAAAATTTGCCGACTATACTATAATTTTGCCTCAGAAACAGACATATAAAGCACTATCCTT----CTAATGGTTAAAAAAGATGTAA---AATGAAC--CAAAAG--AAAAATGAGCCTTTTATAACATTATTATATATTACCATGTTGAATTTTAA-ATTCATAAACTAATATCAATTT-TCTCTCTTTAAAATTAAGGTGTATAA---AATTATTCATTCTTAATTGGTTT-AAA-A-TCTCAGGAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13865391 374 -  14377064 GATGCTC-ATGAGC------------------------------------------------------------CTAAAGCCATGTAAGTGTGG-TA-GAGAC-TTT-TTATGTG-----TTATCAAAAATAAATTTTGAAAAT--TTGTGTTTTGAATCTTAAATAATG----GTTTGCTAAGGTTTTAGG-CTTTCATAGATTTTCTTCCCTAAATC-----------------TTAATTAAAATTTGCTGACTATACTATAATTTTGCCTCAGAAACAGACATATAAAGCACTATCCTT----CTAATGGTTAAAAAAGACATAA---AATGAAC--CAAAAG--AAAAATGAGCCttttataacattattatatattatcatgttgaattttaa-attcataaactaatatGAATTT-TCTCTCTTTAAAATT---GTGTATAA---AATTATTCATTCTGAATTGGTTT-AAA-A-TCTCAGGAA
i cebCap1.NW_016107322v1    C 0 I 2
s aotNan1.NW_018487195v1      9103928 381 -   9889416 GATACTC-ATGTGC------------------------------------------------------------CTAAAGCCATGTAAATGTGG-TATGAGAC-TTT-TTATGTGTTA--TTATCAAAAATAAATTTTTAAAAT--ATGTGTTTTGAATCTTAAATAATT----GTTTGCTAAGGTTTTAAG-TTTTTATAGATTTTCTTCTCTAAATC-----------------TTAATTAAAACTTGCTGACTATACTATAATTTTGCCTCAGAAACAGACATATAAAGCACTATCCTT----CTAATGGTTAAAAAAGACATAA---AATGAAC--TAAAAG--AAAAATGAGCCTTTTATAACATTATTATATATTATCATGTTGAATTTTAA-ATTCATAAACTGATATCAATTT-TCTCTCTTTAAAATTAATATGTATAA---AATTATTCATTCTTAATTGGTTT-AAA-A-TCTCAGGAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24810785 362 -  38779656 GATGCTC-A-GTGC------------------------------------------------------------CTTCCATGATGT--GTATTG-TATGAGAT-TTT-TAATGTGCTATCTCATCAAATAAAA---TTTAAAAT--A-----------------ATGAAA----TTCCACTGAAATTTTAAC-----------TTTTCTTCTGTAAATCAGTTATTAAAACTATAATCAATTAATATTTAGTGAGTTTATTTTAGTATTGCCTTAGCAACAGACATAGTAAG-ATTATTTTTGAAATTTATTCTCAACAGATATATGT---TAAAAACGGCAATGATAATAAATAGGCCTTTATTATCATTACTAT---TTGTCATGTTGAAATTGCA-ATTCAT-------------TTG-TTTCTCTTTTAACATCATATTAATGAATTATTCATTCATTCTTGATAGTTTC-AAATA-TCTCAAGAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17981986 448 +  39895921 gatacactatatgttaactaattgaatttaaataaaaTAAGGTAAAAAAGAAGAAAAAAGCAGGTCCCTCTATGCTCAAGCCACGTAAGGATTA-TATGAGACGTTG-TTATGTACAA--TTAGTTTAAA-AAGTCCATATAGTTAATCTGTTCTTAATTTAAAATAGTGAAGCTCCTTTCCAGATTTTAAG-TTTTCATATATTTTTTTCTCCAGATT-----------------GTAATTAAGATTCGCTGAGTATATTATAGTTTTGCCTCAGGAAGAGAAATACTAAGCATTATTCTT-------ATAGTTAA-AAAGGCATAACAGAATGAA---TAACAT--AAAAATAA-CTTTTAGTATCATCAAACTATATTGCCATGTTGAATTTCAGCCTTCATGAACTAATATCTATTTGTCACACTTTAAAAATAATATTTATGA---AATCATTCATTCTTGAGATGTTT-AAA-ATTCTCAGGTA
i canFam3.chr31             I 195 C 0
s dasNov3.JH578070            2259014 392 +   3081153 GATATTCAATGTGC------------------------------------------------------------CTAAAACAAGGTAAGTATCATTATGAGAC-TTTATTATATGCAG--ATTTAGATAATAAATCTTTCAGAT--ATCTTTTCTGATTTCAAAAGAATGAAGCTCCTTACTATATTTTATG-TTTTCATGTATTTTATTCTCCACAGT-----------------ACAATTAAGGTTTGTTGATTATATTATAGTTTTGCCTCATGGAGCGACATACAAAGCATCATCCTT----AT-GCATTTAAGAATGCCATAACAAAGTGAAA--CATTTA--CAAGATAAGCTTCTGCTATCATTATTATATAATGCCATGTTGAATTTAAGCATTTATGAACTAATATGTATTT-TTACTCTTTTAAAATAATTTGTATGA---AATCATTTATTCTTGGTGTGTCTAAAA-A-TCTCAGGGA
i dasNov3.JH578070          C 0 C 0

a score=2604.000000
s hg38.chr21_GL383579v2_alt     25554 1 +    201197 -A
s panTro5.chr21               8647941 1 +  33445071 -A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183460 1 +  46275980 -A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8165967 1 -  13858734 -A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212105 1 +  32716333 -A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160609839 1 - 185818997 -A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167246816 1 - 192294377 -A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4870730 1 -  30496662 -A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13394111 1 +  21915920 -A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19895731 1 -  90373283 -A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3398633 1 +   7543664 -A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5160246 1 -  13750039 -A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26438487 1 +  50472720 -A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8643584 1 +  13128814 -A
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9104309 1 -   9889416 -A
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24811147 1 -  38779656 -A
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17982434 1 +  39895921 -G
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2259406 1 +   3081153 T-
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765 2 -  14377064 I

a score=28635.000000
s hg38.chr21_GL383579v2_alt     25555 3 +    201197 ACA
s panTro5.chr21               8647942 3 +  33445071 ACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183461 3 +  46275980 ACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8165968 3 -  13858734 ACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212106 3 +  32716333 ACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160609840 3 - 185818997 ACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167246817 3 - 192294377 ACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4870731 3 -  30496662 ACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13394112 3 +  21915920 ACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19895732 3 -  90373283 ACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3398634 3 +   7543664 ACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5160247 3 -  13750039 ACA
i colAng1.NW_012120598v1    C 0 C 0
s aotNan1.NW_018487195v1      9104310 3 -   9889416 ACA
i aotNan1.NW_018487195v1    C 0 I 45
s otoGar3.GL873528           24811148 3 -  38779656 ACA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17982435 3 +  39895921 AGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2259407 3 +   3081153 GCA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765 2 -  14377064 I
e calJac3.chr21              26438488 0 +  50472720 C
e saiBol1.JH378168            8643585 0 +  13128814 C

a score=2194487.000000
s hg38.chr21_GL383579v2_alt     25558 333 +    201197 ----ATCAATACCAACATACTGAAAAAA-ATTTAGGGGATTGCTGAATATATGTGAAGCAAATT-TT-ATATAGTTTGAAAATGAGTCTCTCATTTCTGCCAC-AG-G-CACAGTTGAGGTTGTGAGTTAACCATGTGATTTACTCGATTATGTTGATACTTCTGTAGTGTTTCGTGTAATGAAATTTGCAAA-----TAATGTGAATTTTCTCATTCCAACTGCATTTTACTAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTGCTAGATTCTCTTTCCCAGTGGAAATTTGTTCAAAATGTTGTTTTAGATTTGCTTACAATGTTGTT
s panTro5.chr21               8647945 333 +  33445071 ----ATCAATACCAACAAACTGAAAAAA-ATTTAGGGGATTGCTGAATATATGTGAAGCAAATT-TT-ATATAGTTTGAAAATGAGTCTCTCATTTCTGCTAC-AG-G-CACAGTTGAGGCTGTGAGTTAACCATGTGATTTACTCGACTATGTTGATACTTCTGTAGTGTTTCATGTAATGAAATTTGCAAA-----TAATGTGAATTTTCTCATTCCAACTGCATTTTACTAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTGCTAGATTCTCTTTCCCAATGGAAATTTGTTCAAAATGTTGTTTTAGACTTGCTTACAATGTTGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183464 333 +  46275980 ----ATCAATACCAACAAACTGAAAAAA-ATTTAGGGGATTGCTGAATATATGTGAAGCAAATT-TT-ATATAGTTTGAAAATGAGTCTCTCATTTCTGCTAC-AG-G-CACAGTTGAGGCTGTGAGTTAACCATGTGATTTACTCGACTATGTTGATACTTCTGTAGTGTTTCATGTAATGAAATTTGCAAA-----TAATGTGAATTTTCTCATTCCAACTGCATTTTACTAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAAACTT-CTAATGTGCTAGATTCTCTTTCCCAATGGAAATTTGTTCAAAATGTTGTTTTAGACTTGCTTACAATGTTGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8165971 333 -  13858734 ----ATCAATACCAACAAACTGAAAAAA-ATTTAGGGGATTACTGAATATATGTGAAGCAAATT-TT-ATATAGTTTGAAAATGAGTCTCTCATTTCTGCCAC-AG-G-CACAGTTGAGGTTGTGAGTTAACCATGTGATTTACTCGACTATGTTGATACTTCTGTAGTGTTTCATGTGATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTGCATTTTACTAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCCAGTGGAAATTTCTTCAAAATGTTGTTTTAGACTTTCTTACAATGTTGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212109 333 +  32716333 ----ATCAATACCAACAAACTAAAAAAA-ATTTAGGGGATTGCTGAATATATGTGAAGGAAATT-TT-ATATTGTTTGAAAACGAGTCTCTCATTTCTGCCAC-AG-G-CACAGTTGAGGTTGTGAATTAACCATGTGATTTACTCGACTATGTTGATACTTCTGTAGTGTTTCATATAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTGCATTTTACTAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCGAATGGAAATTTGTTCAAAGTGTTGTTTTAAACTTGTTTACAATGTTGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160609843 333 - 185818997 ----ATCACTACCAACAAACTAAAAGAA-ATTTAGGGGATTGGTGAATATATGTGAAGCGAATT-TT-ATATGGTTTTAAAATGAGGCTCTCGTTTCTGCCAC-AG-G-CACAGTTGAGATTCTGAATTAACCATGTGATTTACTCGACTGTGTTGATACTTCTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTTTATTTTACCAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCCAATGGAAATTGGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167246820 333 - 192294377 ----ATCACTACAAACAAACTAAAAGAA-ATTTAGGGGATTGGTGAATATATGTGAAGCGAATT-TT-ATATGGTTTTAAAATGAGGCTCTCGTTTCTGCCAC-AG-G-CACAGTTGAGATTCTGAATTAACCATGTGATTTACTCGACTGTGTTGATACTTCTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTTTATTTTACCAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCCAATGGAAATTGGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4870734 333 -  30496662 ----ATCACTACCAACAAACTAAAAGAA-ATTTAGGGGATTGGTGAATATATGTGAAGCGAATT-TT-ATATGGTTTTAAAATGAGGCTCTCGTTTCTGCCAC-AG-G-CACAGTTGAGATTCTGAATTAACCATGTGATTTACTCGACTGTGTTGATACTTCTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTTTATTTTACCAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCCAATGGAAATTGGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13394115 333 +  21915920 ----ATCACTACCAACAAACTAAAAGAA-ATTTAGGGGATTGGTGAATATATGTGAAGCGAATT-TT-ATATGGTTTTAAAATGAGGCTCTCATTTCTGCCAC-AG-G-CACAGGTGAGGTTCTGAATTAACCATGTGATTTACTCAACTATGTTGATACTTCTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTTTATTTTACCAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCCAATGGAAATTTGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19895735 327 -  90373283 ----ATCACTACCAACAAACT-AAGGAA-ATTTAGGGGACTGGTGAATACATGTGAAGCGAATT-TT-ATATGGTTTTAAAATGAGGCTCTCGTTTCTGCCAC-AG-G-CACAGTTGAGGTTCTGAATTAACCATGTGATTTACTCGACTGTGTTGATACTTCTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAAC-----TTTACCAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCTTTCCCAATGGAAATTTGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3398637 333 +   7543664 ----ATCACTACCAACAAACTAAAAGAA-ATTTAGGGGATTGGTGAATATATGTGAAGCGAATT-TT-ATATGGTTTTAAAATGAGGCTCTCATTTCTGCCAC-AG-G-AACAGTTGAGGTTCTGAATTAACCATGTGATTTACTCTACTGTGTTGATACTTCTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAACTTTCTCATTCCAACTTTATTTTACCAATAGCAGAAAATTTTCTAAATTTCAAGATAAAAACAGACTT-CTAATGTTCTAGATTCTCCTTCCCAATGGAAATTTGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5160250 333 -  13750039 ----ATCACTACCAACAAACTAAAAGAA-ATTTAGGGGATTGGTGAATATATGTGAAGAGAATT-TC-ATATGGTTTTAAAATGAGTCTCTCATTTCTGCCAC-AG-G-CACAGTTGAGGTTCTAAATTAACCATGTGATTTACTCGACTATGTTGATACTTGTGTAGTGCTTCATGTAATGAAATTTACAAA-----TAATGTGAATTTTCTCATTCCAACTTTATTTTGTCAATAGCAGAAAATTTTCCAAATTTCAAGATAAAAACAGACTT-CTAATGTTTTAGATTTTCTTTCCCAGTGGAAATTTGTTCAAAATGTTGTTTTAAACTTGTTTACAATGTTGTT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24811151 277 -  38779656 ----ATCTGTACCAAGAAACCAAAAAGATGTTGATGAGATTAGTAAAGGGATGTGAAGCAAATT-CT-ATCTAACGTGAAAATGAGTCTTTCATTGCTGCCAA-AA-GTCACAGTTGAGGTTCTGATTTAGCTTTATGATGTATTCCACTTCACTGATACTC---TAGTCTTTCATAAAATGAAATATATAAA-----CAAAGTAGGTTTTCTTAGTCCAACTGTATTT----AGTAGCAGAAAAATTTCTTGTTTTTaacata----------------------------tcattctca--------tggatcagcataat----------------caacattgtt
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17982438 302 +  39895921 ----ATTTGTACCAGCAAACCTAAAAAA-GTTGAGG---TTGGTGAATG-ACGCCAAGTAGATTCTC-ACATGGTATGAACATGAGGGACTCATTGCTGTCAT-TGCG-AAAAGTGGAGGTTATTTATGAAGTACATGATTTATTTCATTTTGTTGATACTTCTCTAGTATTTCACATAATGAAATATATAAATATATTAATGTGGACTTTTTCAGTCTAGCTGCATTTTACTCGTAGTCAAAGAATTTTTAAATTTCATAGTA-AAACAAGCTT-CT-ATGTTTGAAATTTATTCTTCCAATGGAGATTATTTAAA--------------------------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2259410 309 +   3081153 AAATATACCCATTTAGAAACTGAGAAAA-GTTGAGGAAATGAATGGCAAGATGTCAGGTAAGTT-CTAACATGGTGAGAAAATGAGTGTCCCCTCCTTGCAATAAG-G-GGGAGTGGAGGTTCTGTATTAACCATGTCCTTTATTCCACTTTTTTGACATTTTTCTAGTGTTTCACATAATGAGGTACAGAAA-----TATTTTGGATTTTCACTATCCAACTGCATTTTACTAGTAACTAAAGAATTTCTAGACTTCAGGAGAAAAAAATAGTCAATTATGTCCTATATTC-CCCTCCCAATGGAAATGTCTTTAAAA------------------------------
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=730775.000000
s hg38.chr21_GL383579v2_alt     25891 111 +    201197 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAATACGGTTTTATCATGGATTCCCAAAGTATGGTGACAACT-TCTATCACA
s panTro5.chr21               8648278 111 +  33445071 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTGAACAATACAGTTTTATCATGGATTCCCAAAGTATGGTGACAACT-TCTATTACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183797 111 +  46275980 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTGAACAATACAGTTTTATCATGGATTCCCAAAGTATGTTGACAACT-TCTATTACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8166304 111 -  13858734 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAATACAGTTTTATCATGGATTCCCAAAGTATGGTGACAATT-TCTATCACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212442 111 +  32716333 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAATACAGTTTTATCATGGATTCCCAATGCATCGTGACAACT-TCTATCACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160610176 111 - 185818997 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAGTACAGTTTTATCATGGATTCCCAATGTATGGTGACAACT-TCTATCACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167247153 111 - 192294377 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAGTACAGTTTTATCATGGATTCCCAATGTATGGTGACAACT-TCTATCACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4871067 111 -  30496662 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAGTACAGTTTTATCATGGATTCCCAATGTATGGTGACAACT-TCTATCACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13394448 111 +  21915920 TTAAACCTGTTTAAAATTTTAAAACCACATGGACAATGGTTTTACTCTTAGACTTTTAAACAATACAGCTTTAACATAGATTCCCAATGTATGGTGACAATT-TCTATCACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19896062 111 -  90373283 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTATTCTTAGACTTTTAAACAGTACAGTTTTATCATGGATTCCCAATGTATGGTGACAACT-TCTATCACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3398970 111 +   7543664 TTAAACCTGTTTAAAATTTTAAAACCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAATACAATTTTATCATGGATTCCCAATGTATGGTGACAACT-TCTATCACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5160583 111 -  13750039 TTAAACCTGTTTAAAATTTTAAAGCCATATGGACAATGGTTTTACTCTTAGACTTTTAAACAGTACAGCTTTATCATGGATTCCCAATGTATGGTGACAACT-TCTATCACA
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              17982740 109 +  39895921 TTAA---TGTTTCATATTTCAAACTCATATGGGTAATTATCTTAAATCTGAACTTTTAAACAACACAATTTTGTCATGTATTCCCAATAGATGATAAAACCTCTCTGGTGCA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2259719 104 +   3081153 TTAAGGATACATAG---TTCAAATTCATATTGGCAATGATCTTCATCTTGGCCTTTGAAACAGTACCATTTT-TCATGGATTATCAATACAAGAT---AAAT-TTTAGGCTA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C
e otoGar3.GL873528           24811428   0 -  38779656 C

a score=80670.000000
s hg38.chr21_GL383579v2_alt     26002 11 +    201197 AAATAGTCTAT
s panTro5.chr21               8648389 11 +  33445071 AAATAGTCTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183908 11 +  46275980 AAATAGTCTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8166415 11 -  13858734 AAATAGTCTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212553 11 +  32716333 AAATAGTTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160610287 11 - 185818997 AAATAGTCTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167247264 11 - 192294377 AAATAGTCTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4871178 11 -  30496662 AAATAGTCTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13394559 11 +  21915920 AAATAGTCTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19896173 11 -  90373283 AAATAGTCTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3399081 11 +   7543664 AAATAGTCTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5160694 11 -  13750039 AAATAGTCTAT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24811428 11 -  38779656 aaaaagtctat
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17982849 11 +  39895921 AAAAATCATAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2259823 11 +   3081153 AGACATTAtgt
i dasNov3.JH578070          C 0 I 649
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C

a score=2772790.000000
s hg38.chr21_GL383579v2_alt     26013 441 +    201197  
s panTro5.chr21               8648400 440 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22183919 440 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8166426 437 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212564 419 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160610298 438 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167247275 438 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4871189 407 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13394570 442 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19896184 438 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3399092 438 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5160705 437 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24811439 396 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17982860 424 +  39895921  
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2260483 457 +   3081153  
i dasNov3.JH578070          I 649 C 0
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=1338848.000000
s hg38.chr21_GL383579v2_alt     26454 219 +    201197 TGTGTAT---GAGTATATACATACATATAATTTTCCACCTAATTTGC------ATTTTACTAAAATATAAATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAA-----TAAATGACAGAATTGAAATGTAGTTTTTACTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATTGAGCATACAATGATG
s panTro5.chr21               8648840 222 +  33445071 TGTGTAT---GAGTATATACATACATATAATTTTCCACCTAATTTGCAA-TTTATTTTACTAAAAT----ATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAATAAATTAAATGACAGAATTGAAATGTAGTTTTTACTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAA----TATTGTTCCTGTTTTTTATTGAGCATACAATGATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22184359 222 +  46275980 TGTGTAT---GAGTATATACATACATATAATTTTGCACCTAATTTGCAA-TTTATTTTACTAAAAT----ATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAATAAATTAAATGACAGAATTGAAATGTAGTTTTTACTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAA----TATTGTTCCTGTTTTTTATTGAGCATACAATGATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8166863 224 -  13858734 TGTGTAT---GACTATATACATACATATAATTTTCCACCTAATTTGCAA-TTTATTTTACTAAAATATAAATAAATATTTT------TAAACATGATAGTCTATACACAAATGCTAATTTAAAAATAA--TAAATGACAAAATTGAAATGTAGTTTTTACTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATTGAGCATAC---GATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9212983 226 +  32716333 TGTGTAT---GTGTATATACATAAATATAATTTTCCACCTAATTTGCAA-TTTATTTTACTAAAATATAAAAAAA---ATT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAATAAATTAAATGACAAAATTGAAATGTAGTTTTTACTTG----TGAATTAAAATACAAACTGTTTAATACTATTGGTAAAATA-TTATTGTTCCTCCTTTTTATTGAGCATACAATGACG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160610736 229 - 185818997 TGTGTAT---GTGTATATACATACATATAATTTTCCACCTAATTTGCAG-TTTATTTTACTAAAATATAAATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAAGAAATTAAGTGACAAAATTGAAATGTAGTTTTTAGTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATGGAGCATACGATGATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167247713 229 - 192294377 TGTGTAT---GTGTATATACATACATATAATTTTCCACCTAATTTGCAG-TTTATTTTACTAAAATATAAATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAAGAAATTAAGTGACAAAATTGAAATGTAGTTTTTAGTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATGGAGCATACAATGATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4871596 229 -  30496662 TGTGTAT---GTGTATATACATACATATAATTTTCCACCTAATTTGCAG-TTTATTTTACTAAAATATAAATAAATATTTT------TAAACATGATATTTTATACACAAATGCTAATTTAAAAAGAAATTAAGTGACAAAATTGAAATGTAGTTTTTAGTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATGGAGCATATGATGATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13395012 225 +  21915920 CGTGTAT---GTGTATATACATACATATAATTTTCCACCTAATTTACAA-TTTATTTTACTAAAAT----ATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAAGAAATTAAATGACAAAATTGAAATTTAGTTTTAACTTG----TGAATTAAAGTGTAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATGGAGCATACGATGATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19896622 229 -  90373283 TGTGTAT---GTGTATATACATACATATAATTTTCTACCTAATTTGCAA-TTTATTTTACTATAATATAAATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAAGAAATTAAGTGACAAAATTGAAATGTAGTTTTTAGTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATGGAGCATACGATGATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3399530 226 +   7543664 TGTGTAT---GTGTATATACATACATATAATTTTCCACCTAATTTGCAG-TTTATTTTACTAAAATATAAATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAAGAAATTAAGTGACAAAATTGAAATGTAGTTTTTAGTTG----TGAATTAAAATATAAACTGTTTAATATTATTAGTAAAA----TATTGTTCCTGTTTTTTATGGAGCATACGATAATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5161142 229 -  13750039 TGTGTAT---GTGTATATACATACATATAATTTTCCACCTAATTTGCAA-TTTATTTTACTAAAATATAAATAAATATTTT------TAAACATGATATTCTATACACAAATGCTAATTTAAAAAGAAATTAAATGACAAAATTGAAATGTAGCTTTTACTTG----TGAATTAAAATATAAATTGTTTAATATTATTAGTAAAATA-TTATTGTTCCTGTTTTTTATGGAGCATACGATGATG
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24811835 236 -  38779656 CAAACATGCAGTACAGATCAATATATGTAATTTTCCA-TGAATTTGCaa----attttaatataataagaataaatatttttaaaGATAAAGATAAGAGTCTTCACACAAATGTTAACCCAAAAAGGAATTCAAGGACTAAATTGAAATGCAGTTTTTACTTGCATTTCAACTAAAATATGAACTGTTGAATATTACTA-TGAAATG-TTACAACTCCTATCATTTCCTGAGCATATAAGAGT-
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2260940 213 +   3081153 TGCATAT---AAATATATAAGTAAAGATAATTTCACAATTAATTCTCAAAACTTGTTCACTAAAATACAAAGAAA-ATTTC------CAA--------------ACACAGACATTAATTCAAAAAGAAATGTAATGGTTAACTTGAAATGTACTTTTTTTAAA----AGAACT---TTTTTTCCTGTtttatttatttatttatttatttatttTTAAGTGTATTTTTTGAAGATACATAGATG
i dasNov3.JH578070          C 0 I 1206
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e canFam3.chr31              17983284   1 +  39895921 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=392446.000000
s hg38.chr21_GL383579v2_alt     26673 84 +    201197 CAGCTTTGATTTATTTAATATTC-----TTTTGTTTTGCTGA-TTTTTATCT--GTATATATTATTGAA--tttt---ttttttttgaaacagagtc
s panTro5.chr21               8649062 86 +  33445071 CAGCTTTGATTTATTTAATATTC-----TTTTGTTTTTCTGA-TTTTTATCT--GTATATATTATTGAAtttttt---ttttttttgaaacagagtc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22184581 83 +  46275980 CAGCTTTGATTTATTTAATATTC-----TTTTGTTTTTCTGA-TTTTTATCT--GTATATATTATTGAA---ttt---ttttttttgaaacagagtc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8167087 85 -  13858734 CAGCTTTGATTTATTTAATATTC-----TTTTGTTTTGCTGA-TTTTTATCC--GTATATATTATTGAA-ttttt---ttttttttgaaacagagtc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9213209 85 +  32716333 CAGCTTTGATTTATTTAATATTC-----TATTTTTTTGCTGA-TTTTTATCC--ATATATGTTATTGAA-ttttt---ttttttttgaaacagagtc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160610965 94 - 185818997 CAGCTTCAGTTTATTTAATATTCTTTTTTTTTTTTTTGCTGA-TTTTTATCCATATATATATTATTGAA-TTTTTAA-ttttttttgaaacaacatc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167247942 94 - 192294377 CAGCTTCAGTTTATTTAATATTCTTTTTTTTTTTTTTGCTGA-TTTTTATCCATATATATATTATTGAA-TTTTTAA-Atttttttgaaacaacatc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4871825 92 -  30496662 CAGCTTCAGTTTATTTAATATTC--TTTTTTATTTTTGCTGA-TTTTTATCCATATATATATTATTGAA-TTTTTAA-ttttttttgaaacaacatc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13395237 87 +  21915920 CAGCTTTGGTTTATTTAATATTC-----TATTTTTTTGCTGA-TTTTTATCC--ATATATATTATTGAA-TTTTTAA-ttttttttgaaacagcatc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19896851 87 -  90373283 CAGCTTCAGTTTATTTAATATTC------TTTTTTTTGCTGA-TTTTTATCC--ATATATATTATTGAA-TTTTTAAtttttttttgaaacagtatc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3399756 87 +   7543664 CAGCTTCAGTTTATTTAATATTC-----TTTTTTTTTGCTGA-TTTTTATCC--ATATATATTATTGAA-TTTTTAA-ttttttttgaaacaacatc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5161371 86 -  13750039 CAGCTTTGGTTTATTAAATATTG------TATTTTTTGCTGA-TTTTTATCC--GTATAGATTATTGAA-TTTTTAA-ttttgtttgaaacagcatc
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812071 71 -  38779656 --GCTCAGGGATGCTTAATGTTC--TACTATGTTTTTGCTGATTTTTTATCT--TCATATCTTATTGAA-TATTA---GTC----------------
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2261153 1206 +   3081153 I
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e canFam3.chr31              17983284  1 +  39895921 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C

a score=1514163.000000
s hg38.chr21_GL383579v2_alt     26757 269 +    201197 ttactctgttacccacgctggattacagtggctccatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtaggtaggattacaggcgtgcatcaccacacctggctaatttttgtatttttagtagagacaggttttaccatattgtccaggctgatctcaatctcctgaccacaggtgatctgcctacttcggcctcccaaagtactgggattgcaggcatgagccaccatgcccgac
s panTro5.chr21               8649148 269 +  33445071 ttactctgttacccaggctggattacagtggctccatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtaggtaggattacaggcgtgcatcaccacatctggctaatttttgtatttttagtagagacaggttttaccatattgtccaggctgatctcaatctcctgaccacaggtgatctgcctacttcggcctcccaaagtactgggattgcaggcatgagccaccatgcccgac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22184664 269 +  46275980 ttactctgttacccaggctggattacagtggctccatctcggctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtaggtaggattacaggcgtgcatcaccacatctggctaatttttgtatttttagtagagacaggttttaccatattgtccaggctgatctcaatctcctgaccacaggtgatctgcctacttcggcctcccaaagtactgggattgcaggcatgagccaccatgcccgac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8167172 266 -  13858734 ttactctgttacccaggctggattacagtggctccatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtaggtaggattacaggcgtgcatcaccacacctggctaatttttgtatttttagtagagacagg-tttaccatattgtccaggctgatctcaa-ctcctgaccacaggtgatctgcctacttcggcctcccaaagtactgggattgcaggcatgagccacc-tgcccgac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9213294 268 +  32716333 tcactctatc-cccaggctggattacagtggctcaatctcagctcactacaacctacacctcttgggttcaagggattctcttgcctctgcctcctgagtagctaggattacaggcatgcatcaccacacttggctaatttttgtatttttagtagagacaggtttcaccatattgtccaggctgatctcaatctcctgaccacaggtaatctgcctactttggcctcccaaagtactgggattgcaggcatgagccaccatgcctgac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611059 269 - 185818997 tcactctgtcagccaggctggattacagtggctcaagctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtagctaggattacgggcgtgcatcaccacacttcactaatttttgtatttttagtagagacaggtttcaccatattgtctaggctaatctcagtctcctgaccacaggtgatctgcctgcttcagcctctcaaagtactgggattacaggcgtgagccacGATGACTGAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248036 269 - 192294377 tcactctgtcagccaggctggattacagtggctcaatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtagctaggattacaggcgtgcatcaccacacttcgctaatttttgtatttttagtagagacaggtttcaccatattgtctaggctaatctcagtctcctgaccacaggtgatctgcctgcctcagcctctcaaagtactgggattacaggcgtgagccacGATGACTGAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4871917 269 -  30496662 tcactctgtcagccaggctggattacagtggctcaatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtagctaggattacaggcgtgcatcaccacacttcgctaatttttgtatttttagtagagacaggtttcaccatattgtctaggctaatctcagtctcctgaccacaggtgatctgcctgcctcagcctctcaaagtactgggattacaggcgtgagccacGATGACTGAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13395324 268 +  21915920 tcactctgtcagccaggctggattacagtggctcaatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtatttaggattacaggcatgcatcaccacacttggctaatttttgtatttttagtagagaca-gtttcaccatattgtctaggctgatctcagtctcctgaccacaggtgatctgcctgcctcagcctctcaaagtactgcgattacaggcgtgagccaccatgaccgac
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19896938 269 -  90373283 tcactctgtcagccaggctggattacagtggctcaatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtagctaggattacaggcgtgcatcaccacacttggctaatttttgtatttttagtagagacaggtgtcaccatattgtctaggctaatctcagtctcctgaccacaggtgatctgcctgccgcagcctctcaaagtactgggattacaggcgtgagcaaccatgaccgac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3399843 269 +   7543664 tcactctgtcagccaggctggattacagtggctcaatctcagctcactgcaacctacacctcctgggttcaagggattctcttgcctctgcctcctgagtagctaggattacaggcgtgcatcaccacacttggctaatttttgtatttttagtagagacaggtttcaccatattgtctaggctaatctcagtctcctgaccacaggtgatctgcctgcctcagcctctcaaagtaccgggattacaggcgtgagccacgatgaccgac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5161457 269 -  13750039 ttactctgtcagccaggctggattacagtggctcaatctcagctcactgcaacctatacctcctgagttcaagagattctcttgcctctgcctcctgagtatttaggattacaggcgtgcatcacgacacttggctaatttttgtacttttagtagagacaggtttcaccatattgtctaggctgatctcagtctcctgactgcaggtgatctgcctgcctcagcctctcaaagtactgggattacaggcgtgagccactatgactgac
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2261153 1206 +   3081153 I
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e canFam3.chr31              17983284   1 +  39895921 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C
e otoGar3.GL873528           24812142   0 -  38779656 C

a score=69756.000000
s hg38.chr21_GL383579v2_alt     27026 10 +    201197 cAAGACATTG
s panTro5.chr21               8649417 10 +  33445071 cAAGACATTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22184933 10 +  46275980 cAAGACATTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8167438 10 -  13858734 cAAGACATTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9213562 10 +  32716333 cAAGACATTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611328 10 - 185818997 CAAGACATTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248305 10 - 192294377 CAAGACATTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872186 10 -  30496662 CAAGACATTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13395592 10 +  21915920 cAAGACATTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19897207 10 -  90373283 cAAGACATTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3400112 10 +   7543664 cAAGACATTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5161726 10 -  13750039 cAAGACATTG
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2262359 10 +   3081153 CAGGAAATTG
i dasNov3.JH578070          I 1206 C 0
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e canFam3.chr31              17983284  1 +  39895921 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C
e otoGar3.GL873528           24812142  0 -  38779656 C

a score=673653.000000
s hg38.chr21_GL383579v2_alt     27036 112 +    201197 ATTTTTTTATTAAATTACCCTTACCAGGACTTAAGGATGCCATTTTGTCA---TTTATTCTAAATAAC-------AAGAATAATTGTATGCACAATTTGTTGCTC--CTCA--------GTATTTATTTTTA
s panTro5.chr21               8649427 112 +  33445071 ATTTTTTTATTAAATTACCCTTACCAGGACTTAAGGATGCCATTTTGTCA---TTTATTCTAAATGAC-------AAGAATAATTGTATGCACAATTTGTTGCTC--CTCA--------GTATTTATTTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22184943 112 +  46275980 ATTTTTTTATTAAATTACCCTTACCAGGACTTAAGGATGCCATTTTGTCA---TTTATTCTAAATGAC-------AAGAATAATTGTATGCACAATTTGTTGCTC--CTCA--------GTATTTATTTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8167448 112 -  13858734 ATTTTTTTATTAAATTACCCTTACCAGGACTTAAGGATGCCATTTTGTCA---TTTATTCTAAATGAC-------AAGAATAATTGTATGCACAATTTGTTGCTC--CTCA--------Gtatttattttta
i gorGor5.CYUI01015003v1    C 0 I 46
s nomLeu3.chr25               9213572 112 +  32716333 ATTTTTTTATTAAATTACCCTTACAAGGACTTAAGGATGCCATTTTGTCA---TTTATTCTAAATGAC-------AAGAATAATTGTATGCACAATTTGTTGCTC--CTCA--------GTATTTATTTTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611338 112 - 185818997 ATTTTTTTATTAAATTAACCTTACCAGGACTTAAGGATGCCGCCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTATGATTTGTTGCTC--CTCG--------GTATTTATTTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248315 112 - 192294377 ATTTTTTAATTAAATTAACCTTACCAGGACTTAAGGATGCCATCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTATGATTTGTTGCTC--CTCG--------GTATTTATTTTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872196 112 -  30496662 ATTTTTTTATTAAATTAACCTTACCAGGACTTAAGGATGCCATCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTATGATTTGTTGCTC--CTTG--------GTATTTATTTTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13395602 111 +  21915920 ATTTTTT-ATTAAATTAACCTTACCAGGACTTAAGGATGCCATCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTACAATTTGTTGCTC--CTCG--------GTATTTATTTTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19897217 112 -  90373283 TTTTTTTAATTAAATTAACCTTACCAGGACTTAAGGATGCCATCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTACAATTTGTTGCTC--CTTG--------GTATTTATTTTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3400122 112 +   7543664 ATTTTTTTATTAAATTAACCTTACCAGGACTTAAGGATGCCATCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTATGATTTGTTGCTC--CTCG--------GTATTTATTTTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5161736 111 -  13750039 ATTTTTT-ATTAAATTAACCTTACCAGGACTTAAGGATGCCATCTTGTCA---TTTATTCTAAATGAC-------AAAAATAATTGTATGTACAATTTGTTGCTC--CTTG--------GTATTTATTTTTA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812142 125 -  38779656 ATTTTTAAAGTAAAT-----TTACTAGAACTTAAGGATCACATTTTGTCATACTTTATACTAAAAGACAAAAAAAAAAAAAAACTCCATCCAAGATGTGTTAACC--CCCAAACAAAACAACTTTATATTTG
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2262369 103 +   3081153 -TTTTTAAAATATATTGATCTCACTAGAATTTGACTACA----TTTGTTA-----TACTCTTAACTAG-------AAAAAAA---TCATCCAAAGTTTATTTTTCTATTTG--------ACATTTATTCTT-
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e canFam3.chr31              17983284   1 +  39895921 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=24954.000000
s hg38.chr21_GL383579v2_alt     27148 4 +    201197 TTGA
s panTro5.chr21               8649539 4 +  33445071 TTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185055 4 +  46275980 TTGA
i panPan2.chr21             C 0 C 0
s nomLeu3.chr25               9213684 4 +  32716333 TTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611450 4 - 185818997 TTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248427 4 - 192294377 TTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872308 4 -  30496662 TTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13395713 4 +  21915920 TTGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19897329 4 -  90373283 TTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3400234 4 +   7543664 TTGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5161847 4 -  13750039 TTGA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812267 4 -  38779656 TTGA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2262472 4 +   3081153 TTGT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765 2 -  14377064 I
e canFam3.chr31              17983284 1 +  39895921 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488 0 +  50472720 C
e saiBol1.JH378168            8643585 0 +  13128814 C
e gorGor5.CYUI01015003v1      8167560 46 -  13858734 I

a score=285322.000000
s hg38.chr21_GL383579v2_alt     27152 47 +    201197 TATAAAATTTTTACTTTTCTCATTAAACTAAAGTGAATTCAATAAT--T
s panTro5.chr21               8649543 49 +  33445071 TATAAAATTTTTACTTTTCTCATTAAACTAAAGTGAATTCAATAATTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185059 49 +  46275980 TATAAAATTTTTACTTTTCTCATTAAACTAAAGTGAATTCAATAATTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8167606 49 -  13858734 TATAAAATTTTTACTTTTCTCATTTAACTAAAGTGAATTCAATAATTAT
i gorGor5.CYUI01015003v1    I 46 C 0
s nomLeu3.chr25               9213688 49 +  32716333 TATAAAATTTTTACTTTTCTTATTAAATTAAAGTGAATTCAATAATTAT
i nomLeu3.chr25             C 0 I 2
s rheMac8.chr3              160611454 49 - 185818997 TACAAAATTTTTACTTTTCTTATTAAATTAAAGAGAATTCAATAACTAT
i rheMac8.chr3              C 0 I 2
s macFas5.chr3              167248431 49 - 192294377 TACAAAATTTTTACTTTTCTTATTAAATTAAAGAGAATTCAATAACTAT
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      4872312 49 -  30496662 TACAAAATTTTTACTTTTCTTATTAAATTAAAGAGAATTCAATAACTAT
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13395717 49 +  21915920 TACAAAATTTTTACTTTTCTTATTAAATTAAAGAGAATTTAATAATTAT
i cerAty1.NW_012002954v1    C 0 I 2
s chlSab2.chr2               19897333 49 -  90373283 TACAAGAGTTTTACTTTTCTTATTAAATTAAAGAGAATTCAATAACTAT
i chlSab2.chr2              C 0 I 2
s manLeu1.NW_012103476v1      3400238 49 +   7543664 TACAAAATTTTTACTTTTCTTATTAAATTAAAGAGAATTCAATAACTAT
i manLeu1.NW_012103476v1    C 0 I 2
s colAng1.NW_012120598v1      5161851 49 -  13750039 TACAAAATTTTTACTTTTCTTATTAAATTAAAGAGAATTCAATAACTAT
i colAng1.NW_012120598v1    C 0 I 2
s otoGar3.GL873528           24812271 37 -  38779656 TATGAAATTTGTA----TATTACTAAATTGA--------CATTAATTAT
i otoGar3.GL873528          C 0 I 2
s dasNov3.JH578070            2262476 47 +   3081153 TATAAAATTTTCATTTTCCTTATTTTCTTGAAGTGAATTTGGTTTTA--
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e canFam3.chr31              17983284  1 +  39895921 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C

a score=2756056.000000
s hg38.chr21_GL383579v2_alt     27199 443 +    201197 -AGAGTATATAGTTATGAACATATTATCAATATTGCTTT--TATGTGTATTTATAATGTATTAAA-TATTAAGTCATAA--AATA--AGTCCCTAAAAATCTTTTTATTCCAAA--TGTTTAGTGTAAAATATATTTTAATTTTCACCTGCTCTACCATCAGTTTAGTAAAACCACTACCTAGAAAAACACAGGGACTCAATGTTTGGCACATC----TCATTGCCTTGTATTTT------TTTTTCTTTTTTTGGTTTGGTTTTGTGTCGTCTTCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCTTTCAGTTGATTTTTATTCTAAACTGATAACAAACTGGATTTCAGTTTCATTTGTGAAGTATTCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT--CATTT-TAAAGCTATCCCCTAGAAA
s panTro5.chr21               8649592 445 +  33445071 -AGAGTATATAGTTATGAACATATTATCAATATTTCTTT--TATGTGTATTTATAATGTATTAAA-TATTAAGTCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TGTTTAGTGTAAAATATATTTTAATTTTGACCTGCTCTACCATCAGTTTAGTAAAACCACTACCTAGAAAAACACAGGGACTCAATGTTTGGCACATC----TCATTGCCTTGTATTTT------TTTTTCTTTTTTTGGTTTGGTTTTGTGTCGTCTTCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCTTTCAGTTGATTTTTATTCTAAATTGATAACAAAGTGGATTTCAGTTTCATTTGTGAAGTATTCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT--CATTT-TAAAGCTATCCCCTAGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185108 445 +  46275980 -AGAGTATATAGTCATGAACATATTATGAATATTTCTTT--TATGTGTATTTATAATGTATTAAA-TATTAAGTCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TGTTTAGTGTAAAATATATTTTAATTTTGACCTGCTCTACCATCAGTTTAGTAAAACCACTACCTAGAAAAACACAGGGACTCAATGTTTGGCACATC----TCATTGCCTTGTATTTT------TTTTTCTTTTTTTGGTTTGGTTTTGTGTCGTCTTCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCTTTCAGTTGATTTTTATTCTAAATTGATAACAAAGTGGATTTCAGTTTCATTTGTGAAGTATTCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT--CATTT-TAAAGCTATCCCCTAGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8167655 444 -  13858734 -AGAGTATATAGTTATGAACATATTATCAATATTT-TTT--TATGTGTATTTATAATGTATTAAA-TATTAAGTCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TGTTTAGTGTAAAATATATTTTAATTTTGACCTGCTCTACCATCAGTTTAGTAAAACCACTACCTAGAAAAACACAGGGACTCAATGTTTGGCACCTC----TCATTGCCTTGTAtttt------tttttctttttttggtttggttttgtgtcgtcttCCATTCACGTGCTCTGTTCGAAATTCTATCCTCCTTTGTAATCTGTATTAGAATCTTTCAGTTGATTTTTATTCTAAATTGATAACAAACTGGATTTCAGTTTCATTTGTGAAGTATTCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT--CATTT-TAAAGCTATCCCCTAGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9213739 452 +  32716333 -AGAGTATATAGTTATGAACATATTATCAATATTTCTCT--TATATGTATTTATAATGTATTAAGTTATTAAGTCATAA--AATAATAGTCCCTAAATATCTTTTTATTCCAAA--TTTTTATTGTAAAATGTATTTTAATTTTGACCTGCTCTACCATCAGTTTAGTAAAACTACTATCTAGAAAAACACAGGGACTCAATGTTTGGCACATC----TAATTGCCTTGTATGtttttttatttttatttttttagtttggttttGTGTTGTCTTCTATTCACATGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCTTTCACTTGATTTTTATTCTAAATTGATAGCAAACTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT--CATTT-TAAAGCTATCCCCTAGAAA
i nomLeu3.chr25             I 2 C 0
s rheMac8.chr3              160611505 436 - 185818997 -AGAGTATATAGTTATGAGCA---TATCAATATTTCTCT--TATGTGTATTTATAATGTATTAAATTATTAAATCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TTTTTATTGTAAAATATATTTCAATTTTGACCTGCTCTACTGTCAGTTTAGTAAA---ACTATCTAGAAAAACACAGCAACTCAATATTTGGCACACC----TAATTGCCttgtattct------ttt---tctttttggtttggttttgtgttgtcttCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCCTTCACTTGATTTTTATTCTAAATTGATAACAAGCTGGATTTCAGTTTCATTAGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT---ATTT-TAAAGCTAGTCCCTAGAAA
i rheMac8.chr3              I 2 C 0
s macFas5.chr3              167248482 436 - 192294377 -AGAGTATATAGTTATGAGCA---TATCAATATTTCTCT--TATGTGTATTTATAATGTATTAAATTATTAAATCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TTTTTATTGTAAAATATATTTCAATTTTGACCTGCTCTACTGTCAGTTTAGTAAA---ACTATCTAGAAAAACACAGCAACTCAATATTTGGCACACC----TAATTGCCttgtattct------ttt---tctttttggtttggttttgtgttgtcttCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCCTTCACTTGATTTTTATTCTAAATTGATAACAAGCTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT---ATTT-TAAAGCTAGTCCCTAGAAA
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      4872363 436 -  30496662 -AGAGTATATAGTTATGAGCA---TATCAATATTTCTCT--TATGTGTATTTATAATGTATTAAATTATTAAATCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TTTTTATTGTAAAATATATTTCAATTTTGACCTGCTCTACTGTCAGTTTAGTAAA---ACTATCTAGAAAAACACAGCAACTCAATATTTGGCACACC----TAATTGCCttgtattct------ttt---tctttttggtttggttttgtgttgtcttCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCCTTCACTTGATTTTTATTCTAAATTGATAACAAGCTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT---ATTT-TAAAGCTAGTCCCTAGAAA
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13395768 436 +  21915920 -AGAGTATATAGTTATGAGCA---TACCAATATTTCTCT--TATGTGTATTTATAATGTATTAAATTATTAAATCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TTTTTATTGCAAAATATATTTCAATTTTGACCTGCTCTACTGTCAGTTTAGTAAA---ACTATCTAGAAAAACACAGCGACTCAGTATTTGGCACACC----TAATTGCCTTGTATTCT------TTT---TCTTTTTGGTTTGGTTTTGTGTTGTCTTCCATTCACGTGCTCTGTTTGCAATTCTTTCCTCCTTTGTAATCTGTAATAGAGTCCTTCACTTGATTTTTATTCTAAATTGATAACAAGCTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT---ATTT-TAAAGCTAGTCCCTAGAAA
i cerAty1.NW_012002954v1    I 2 C 0
s chlSab2.chr2               19897384 435 -  90373283 -AGAGTATATAGTTATGAGCA---TATCAATATTTCTCT--TATGTATATTTATAACGTATTAAATTATTAAATCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TTTTTATTGTAAAATATATTTCAATTTTGACCTGCTTTACTGTCAGTTTAGTAAA---ATTATCTAGAGAAACACAGCCACTCAATATTTGGCACATC----TAGTTGCCttgtgttct------ttt---tctttttggtttggttttgtgttgtcttCCATTCATGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGAATCCTTTACTTGATTTTTATTCTAAATTGATAACAAACTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGATTTTT---AAGTTGTCTCATT-GAAAAAT---ATTT-TAAAGTTAGCCCCTAGAAG
i chlSab2.chr2              I 2 C 0
s manLeu1.NW_012103476v1      3400289 436 +   7543664 -AGAGTATATAGTTATGAGCC---TATCAATATTTCTCT--TATGTGTATTTATAATGTATTAAATTATTAAATCATAA--AATAATAGTCCCTAAAAATCTTTTTATTCCAAA--TTTTTATTGTAAAATATGTTTCAATTTTGACCTGCTCTACTGTCAGTTTAGTAAA---ACTATCTAGAAAAACACAGCAACTCAATATTTGGCACACC----TAATTGCCTTGTATTCT------TTT---TCTTTTTGGTTTGGTTTTGTGTTATCTTCCATTCACGTGCTCTGTTTGAAATTCTTTCCTCCTTTGTAATCTGTAATAGTATCCTTCACTTGATTTTTATTCTAAATTGATAACAAGCTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAAT---ATTT-TAAAGCTAGTCCCTAGAAA
i manLeu1.NW_012103476v1    I 2 C 0
s colAng1.NW_012120598v1      5161902 428 -  13750039 -AGAGTGTATAGTTATGAGCA---TATC--TATTTCTCT--TATGTGTATTTATAATGTATTAAATTATTAAATCATAA--AATAATGGTCCCTAACAATCTTTTTATTCCAAA--GTTTTATTGTAAAATATATTTTAATTTTGAGCTGCTCTCCTGTCAGTTTAGTAAA---ACTATCTAGAAAAACACAGCGACTCAATATTTGGCACATC----TAATTGCCTTGTATTCT------TTT---TCTTTTTGGTTTGGTTTTGTG-----TTCCATTCACGTGCTCTGTTTGAAATTTTTTGCTCCTTTGTAATCTGTAATAGAATCCTTCACTTGATTTTTATTCTAAATTGGTAACAAACTGGATTTCAGTTTCATTTGTGAAGTATGCACATCCTAAATATAAATGTTTTTT---AAGTTGTCTCATTAAAAAAA----ATTT-TAAAGCTAGCCCCTAGAAA
i colAng1.NW_012120598v1    I 2 C 0
s otoGar3.GL873528           24812310 429 -  38779656 -GGGATATATAGTTATAAA-ATATTATCAACACTTATGTTGTATGTGTATTTACCATATATTAAATTGCTTAGTAAAAATTAATATAACTCTTTGAAAACTCTTTTATTTCACA--CTTTTACGGTAACACGTGTTTTAATATGTACCTATTCTGTCACCATTTTGGTAAAATTGCTCTCTGG---GACATGAGAACCCAATACCTGGCATAGC----TAATTCC-----ATCCT------TTC-------CTTGTTTTCATTTTGCATT---TCCTATTCTCCTAGTCCGTTTTAAACTCTT--CTCTTTTGTAATCTGTCA---GATCCTTTGGTTGATTTTTATTCTAAATTGGTGACAA-CTAGAATTCACATTCCTTTTTGATGAATGCACAACttaaatataaatattttttttaaagttgtattattttttaaat-ttattC-TCAAGCTATCTCTCAGTAA
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              17983285 375 +  39895921 -aGAGTGTATAATCATAAAAA---TCTCAATATTTCTTT--TAGAT-TATTTACGGTCTATTAAATTACT------CAA--AATATTG-------------TCTTTGTTTTAAC--TGTTGGCTGTAAAATGTATTTTAATTTTGACCTGTCCAACCAACACTTTACTAAAACTACTGTCTAGAAGGGCAAAGAGACTGAATGGTTAGCACATCAATATCATTGCACCTTATGAT------CTT----GTTTTTAATTT----------CATCTTCCATTCACCTCTTCTGCCTAGAAGTCTTGCCTCCTTTGTAATATGTTA----------------------------------------ACTGGGCTTC--TTTATTTTTTGATATATTTATATCTTAAATAGAAGTACTTTCT--GAAGTTTCCtttttttaaagattttatttatttatttattcatgagaga
i canFam3.chr31             I 1 I 195
s dasNov3.JH578070            2262523 427 +   3081153 AAAGGCATGCAACTACAAA-ATATCCTCAATATTTC-----TAGGTGTATTTGTTGCATATTGAATTCTTCACATATGA--AATTGCCCTCCTTAAAAATCTTCTTACCCTAACTTTTTTTGCTGTAAATTATGTTTAAATTTTGACTTATTCTATTTCCACTTTTCTATAACTACTGTCTAG---GTCACAGTGATCCACCAGTAAGCACATC----TGATTGCATCTTATCAT------CCT---------TGTTTTAATTTTG---CATCTTTCACTCACCTTTTCTTTTTGTGTCTCTTTCATCTTATGGAAACTGTGACACAGATTTATACTTGAATTTCAACCTAAACCAGTGA-AAAATGAATTTTAGACTCCTGTATGATCTATGCatat--taaatataaacattttca---ttattttttttttaaatttCT--GCTTT-TAGAGCTCTCTCTTAGCAA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=96760.000000
s hg38.chr21_GL383579v2_alt     27642 18 +    201197 TCACATACTCTAAGATTT
s panTro5.chr21               8650037 18 +  33445071 TCACATACTCTAAGATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185553 18 +  46275980 TCACATACTCTAAGATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8168099 18 -  13858734 TCACATACTCTAAGATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9214191 18 +  32716333 TCACATACTCTAAGAGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611941 17 - 185818997 TCACAT-CTGTGAGAATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248918 17 - 192294377 TCACAT-CTGTGAGAATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872799 17 -  30496662 TCACAT-CTGTGAGAATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13396204 18 +  21915920 TCACATACTGTAAGAATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19897819 18 -  90373283 TCACATACTGTAAGAATT
i chlSab2.chr2              C 0 I 48
s manLeu1.NW_012103476v1      3400725 17 +   7543664 TCACAT-CTGTAAGAATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5162330 18 -  13750039 TCACATACTGTAAGAATT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812739 14 -  38779656 CTG----GTCTCAGAGTT
i otoGar3.GL873528          C 0 I 2
s canFam3.chr31              17983855 18 +  39895921 TCACATACTCTCAGAGTT
i canFam3.chr31             I 195 C 0
s dasNov3.JH578070            2262950 18 +   3081153 TCACATACTGTCAAAGTT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C

a score=47080.000000
s hg38.chr21_GL383579v2_alt     27660  9 +    201197 ----------TTCTGTACA
s panTro5.chr21               8650055  9 +  33445071 ----------TTCTGTACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185571  9 +  46275980 ----------TTCTGTACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8168117  9 -  13858734 ----------TTCTGTACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9214209  9 +  32716333 ----------TTCTATACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611958  9 - 185818997 ----------TTCTATACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248935  9 - 192294377 ----------TTCTATACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872816  9 -  30496662 ----------TTCTATACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13396222  9 +  21915920 ----------TTCTATACA
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3400742  9 +   7543664 ----------TTCTATACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5162348  9 -  13750039 ----------TTCTATACA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812755  7 -  38779656 ----------TCCTATC--
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              17983873  9 +  39895921 ----------CTCTACACA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2262968 19 +   3081153 TCACCACAAACTCTGTAAA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C
e chlSab2.chr2               19897837 48 -  90373283 I

a score=1147799.000000
s hg38.chr21_GL383579v2_alt     27669 172 +    201197 GATGCTTATATAGTCTAAGTCTTC-TGTATTTTTGCTCATGTCTCTGTAATCAAGTCCCATATTAGCAATAGCCTGTAGGAATATTCACATGCTTACTTTAAACTTAACATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAACAGCTCCTATAGACGTACTTATTGAAG
s panTro5.chr21               8650064 172 +  33445071 GATCCTTATATAGTCTAAGTCTTC-TGTATTTTTGCTCATGTCTCTGTAATCAAGTCCCATATTAGCAATAGCCTGTAGGAATATTCACATGCTTACTTTAAACTTAATATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAACAGCTCCTATAGACCTACTTATTGAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185580 172 +  46275980 GATCCTTATATAGTCTAAGTCTTC-TGTATTTTTGCTCATGTCTCTGTAATCAAGTCCCATATTAGCAATAGCCTGTAGGAATATTCACGTGCTTACTTTAAACTTAATATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAACAGCTCCTATAGACCTACTTATTGAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8168126 172 -  13858734 GATCCTTATATAGTCTAAGTCTTC-TGTATTTTTGCTCATGTCTCTGTAATCAAGTCCCATATTAGCAATAGCCTGTAGGAATATTCACATGCTTACTTTAAACTTAATATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAACAGCTCCTATAGACATACTTATTGAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9214218 172 +  32716333 GATGCTTATATATTCTAAGTCTTC-TGTATTTTTGCTTATGTCTCTGTAATCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAAACTTAATATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAACAGCTCCTGTAGACATACTTATTTAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160611967 167 - 185818997 GATGCTTATATATTCTAAGTCTTC-CGTATTTTTGCTCATGTCTCTGTAATCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAGACTTAATATGCTCAAAATAGAAACT--A-GTCATTTCTTCAACAA---CTCCTATAGACATACTTATTTAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167248944 167 - 192294377 GATGCTTATATATTCTAAGTCTTC-CGTATTTTTGCTCATGTCTCTGTAATCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAGACTTAATATGCTCAAAATAGAAACT--A-GTCATTTCTTCAACAA---CTCCTATAGACATACTTATTTAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872825 167 -  30496662 GATGCTTATATATTCTAAGTCTTC-CGTATTTTTGCTCATGTCTCTGTAATCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAGACTTAATATGCTCAAAATAGAAACT--A-GTCATTTCTTCAACAA---CTCCTATAGACATACTTATTTAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13396231 169 +  21915920 GATGCTTATATATTCTAAGTCTTC-CGTATTTTTGCTCATGTCTCTGTAATCCCATCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAGACTTAATATGCTCGAAATAGAAACTACA-GTCATTTCTTCAACAA---CTCCTAAAGACATACTTATTTAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19897885 169 -  90373283 GATGCTTATATATTCTAAGTCTTC-CATATTTTTGCTCATGTCTCTGTAATCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGTTTACTTTAGAATTAATATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAA---CTCCTATAGACATACTTATTTAAG
i chlSab2.chr2              I 48 C 0
s manLeu1.NW_012103476v1      3400751 167 +   7543664 GATGCTTATATATTCTAAGTCTTC-TGTATTTTTGCTCATGTCTCTGTAATCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAGACTTAATATGCTCAAAATAGAAACT--A-GTAATTTCTTCAACAA---CTCCTATAGACATACTTATTTAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5162357 169 -  13750039 GATGCTTATATATTCTAAGTCTTC-TGTATTTTTGCTCATGTCTCTGTAACCCAGTCCCATATTAGCAATAGCCTGTAGGTATATTCACATGCTTACTTTAGACTTAATATGCTCAAAATAGAAACTACA-GTCATTTCTTCAACAA---CTCCTATAGACTTACTTATTTACG
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812762 161 -  38779656 AATACTTATAAAATCTAAGTCTGT-TATATTTTTTCTCATGTCTCTGTAATTCAGTCTCA-ATT--CAAGACCCTTTAGATACATTCTCTTGCT-------AACTTAATATGCTTAAGAT-GTAACTATATGTCAGTCCTGAAATCATA-CCTGTATGGACTTATTTATTTCTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17983882 165 +  39895921 GATGACTCTGAATTCTAAGAATTT-TATATATTTAATCATGTTTCTGAAATCCAGTCCCATATTGGTATTTGCTTGTACATACATTCACATACT-AATTTAAACTTTATATTCTT-AAATAGCAACAGCA--TCATTCTTTTAAGCACAGCTCAAGTAGGCATATTCAT----G
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2262987 155 +   3081153 GATGAATCTGAAGTCTTAATCTTCTTGTATTTTT-------CTTTGGTTACTTAGTC-----------ACTGCCTGTAGATATATTGACATGCTAACATTAAATTTAATGTGCTCAAAATAGAAACTACC-GTCTTTCTTTCAACCACAACCCCTATAGATATACTTCTTTAAG
i dasNov3.JH578070          C 0 I 16904
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=976737.000000
s hg38.chr21_GL383579v2_alt     27841 151 +    201197 TCATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgatggttgcagcatttagataatttcaaggtctggatgtgctgactactttatcttttaacaatggctattttttctaacttttttatgtaacaca---tctt---agattttagaat
s panTro5.chr21               8650236 151 +  33445071 TCATCACTAGCAt---ta-acata-taaatccatctttctgtctcatggttgcagcatttagataatttcaaggtctggatgtgctgactactttatcttttaacaatggctattttttctaacttttttatgtaacaca---tctt---agattttagaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185752 149 +  46275980 TCATCACTAGCAt---ta-acata-taaatccatctttctgtctcatggttgcagcatttagataatttcaaggtctggatgtgctgactactttatcttttaacaatggctattttttctaacttttttatgta--aca---tctt---agattttagaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8168298 151 -  13858734 TCATCACTAGCAt---ta-acata-taaatccatctttctgtctgatggttgcagcatttagataatttcaaggtctggatgtgctgactactttatcttttaacaatggctattttttctaacttttttatgtaacaca---tctt---agactttagaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9214390 154 +  32716333 TCATCACTAGCAT---TA-ATATA-TAAATCCATCtttctatctgattgttgcagcatttagataatttcaaggtctggatgtgttgactactttatcttttaacaatggctattttttctaacttttttatataacacatcttctt---agattttagaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160612134 151 - 185818997 TCATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgattgttgcagcacttagatcacttcaaggtctggatgtgttgactactttatcttttaacaatgactattttttctaacttttgtatataacacg---tctt---agatcttagaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167249111 151 - 192294377 TCATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgattgttgcagcacttagatcacttcaaggtctggatgtgttgactactttatcttttaacaatgactattttttctaacttttgtatataacacg---tctt---agatcttagaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4872992 151 -  30496662 TCATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgattgttgcagcacttagatcacttcaaggtctggatgtgttgactactttatcttttaacaatgactattttttctaacttttgtatataacacg---tctt---agattttagaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13396400 151 +  21915920 TCATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgattgttgcagcacttagatcacttcaaggtctggatgtgttgactactttatcttttaacaatgactattttttctaacttttgtatataacacg---tctt---agattttagaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19898054 151 -  90373283 TTATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgattgttgcagcacttagatcacttcaaggtctggatgtgttgactactttatcttttaacaatgactattttttctaacttttttatataacacg---tctt---agattttagaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3400918 151 +   7543664 TCATCACTAGCAT---TA-ACATA-TAAATCCATCtttctgtctgattgttgcagcacttagatcacttcaaggtctggatgtgctgactactttatcttttaacaatgactattttttctaacttttgtatataacacg---tctt---agattttagaag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5162526 151 -  13750039 TCATCACTAGCAt---ta-acata-taaatccatctttctgtctgattgttgcagcacttagatcacttcaagatctggatgtgttgattactttatcttttaacaatgactgttttttctaacttttttatataacacg---tctt---agattttagaag
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24812923 153 -  38779656 GCATCTGTGGTGTTTGTT-Acatatttagtctgtatttctgcctgattgttatagcagctgaaccgcttcaaggtctagatctgtttactactttatcttttgaccatggc-----ttatcaattttttttaacaatgca---tcttctcaaatattatgat
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17984047 150 +  39895921 TTACCAAAACCAT---TGCACATA--AAGGCTATGtttctgtctgattggtttagcagctggatgaccactgggtctggatctattgactactttatctcttgaccatgg----tatttctcactttattgtataacaca---tctttttagattttatgat
i canFam3.chr31             C 0 I 198
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=3815552.000000
s hg38.chr21_GL383579v2_alt     27992 586 +    201197  
s panTro5.chr21               8650387 586 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22185901 586 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8168449 584 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9214544 585 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160612285 587 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167249262 587 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4873143 587 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13396551 587 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19898205 587 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3401069 587 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5162677 587 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24813076 526 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17984395 571 +  39895921  
i canFam3.chr31             I 198 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=861129.000000
s hg38.chr21_GL383579v2_alt     28578 144 +    201197 tgctctccaccagag----actgccaggttttgggtctattcct-------ccctcagaggcagtgcaccattgcctgagactaggtccaagatggtagtatcctgcttctttcccagtgatattgcttatttgtttgtgcaaagcttgttgtga
s panTro5.chr21               8650973 144 +  33445071 tgctctccaccagag----actgccaggttttgggtctattcct-------ccctcagaagcagTGCACCATTGCCTGAGACTAGGTCCAAGATGGTAGTTTCCTGCTTCTTTCCCAGTGATATTGCTTATTTGTTTGTGCAAAGCTTGTTGTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22186487 144 +  46275980 tgctctccaccagag----actgccaggttttgggtctattcct-------ccctcagaagcagTGCACCATTGCCTGAGACTAGGTCCAAGATGGTAGTTTCCTGCTTCTTTCCCAGTGATATTGCTTATTTGTTTGTGCAAAGCTTGTTGTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8169033 144 -  13858734 TGCTCTCCACCAGAG----ACTGCCAGGTTTTGGGTCTATTCCT-------CCCTCAGAAGCAGTGCACCATTGCCTGAGACTAGGTCCAAGATGGTAGTTTCCTGCTTCTTTCTCAGTGATATTGCTTATTTGTTTGTGCAAAGCTTGTTGTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9215129 144 +  32716333 TGCTCTCCACCAGAG----ACTGCCATGTTTTGGGTCTATTCCT-------CCCTCAGAAGCAGTGTGCCATTGCCTGGGACTAGGTCCAAGATGGCAGTTTCCTGCTTCTTTCCCAGTGATATTGCTTATTAGTTTATGCAAAGCTTGTTGTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160612872 144 - 185818997 TGTTCTCCACCAGAG----ACTGCCACATTTTGGGTCTGTTCCT-------CCCTCAGAAGCAGTGTACCATTGCCCGGGACTAGGGCTAAGATTGCAGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGTTTGTGCAAAGCTTGTTGTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167249849 144 - 192294377 tgttctccaccagag----actgccacattttgggtctgttcct-------ccctcagaagcagTGTACCATTGCCCGGGACTAGGGCTAAGATTGCAGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGTTTGTGCAAAGCTTGTTGTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4873730 144 -  30496662 TGTTCTCCACCAGAG----ACTGCCACATTTTGGGTCTGTTCCT-------CCCTCAGAAGCAGTGTACCATTGCCCGGGACTAGGGTTAAGATTGCAGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGTTTGTGCAAAGCTTGTTGTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13397138 133 +  21915920 TGTTCTCCACCAGAG----ACTGCCACATTTTGGGTCTGTTCCT-------CCCTCAGAAGCAGTGTACCATTGCCCGGGACTAGGGCCGAGATCACAGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGT-----------TTGTTGTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19898792 143 -  90373283 TGTTCTCCACCAGAG----ACTGCCACATTTTGGGTCTATTCCT--------CCTCAGAAGCAGTGTACCATTGCCTGGGACTAGGGCTAAGATCGCGGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGTTTGTGCAAAGCTTGTTGTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3401656 144 +   7543664 TGTTCTCCACCAGAG----ACTGCCACATTTTGCGTCTGTTCCT-------CCCTCAGAGGCAGTGTACCATTGCCCGGGACTAGGGCTAAGATCGCAGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGTTTGTGCAAAGCTTGTTGTGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5163264 143 -  13750039 TGCTCTCCACCAGAG----ACTGCCATATTTTG-GTCTATTCCT-------CCCTCAGAAGCAGTGTACCGTTGCCCGGGACTAGGGCCAAGATCGCAGTTTCCTACTTCTTTCCCAGTGATATTGCTTATTAGTTTGTGCAAAGCTTGTTGTGA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24813602 155 -  38779656 TACCCTCTGCCAGAATGATACTATTGCATTTTGCTTGTATTTTTTTTAATTCCCTCAGAAGCAGTGTACCATTGCCTGGGATCAAGGCAAAGATAGTGGTTTTCAGCTTCTTTCCAAATTATTTTGCTTGTTTGTTGGTACAAAGCTGATTGTGG
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e canFam3.chr31              17984966   0 +  39895921 C
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=5461240.000000
s hg38.chr21_GL383579v2_alt     28722 864 +    201197  
s panTro5.chr21               8651117 863 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22186631 868 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8169177 873 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9215273 877 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160613016 874 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167249993 872 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4873874 877 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13397271 875 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19898935 876 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3401800 876 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5163407 867 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24813757 817 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17984966 699 +  39895921  
i canFam3.chr31             C 0 I 584
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=76107.000000
s hg38.chr21_GL383579v2_alt     29586 12 +    201197 TCCATCTTCATC
s panTro5.chr21               8651980 12 +  33445071 TCCATCTTCATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187499 12 +  46275980 TCCATCTTCATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170050 12 -  13858734 TCCATCTTCATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216150 12 +  32716333 TCCATCTTCATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160613890 12 - 185818997 TCCACCTTCATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167250865 12 - 192294377 TCCACCTTCATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4874751 12 -  30496662 TCCACCTTCATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13398146 12 +  21915920 TCCACCTTCATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19899811 12 -  90373283 TCCACCTTCATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3402676 12 +   7543664 TCCACCTTCATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5164274 12 -  13750039 TCCACCTTCATC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24814574 12 -  38779656 TTTATCTCTACC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765  2 -  14377064 I
e canFam3.chr31              17985665 584 +  39895921 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e calJac3.chr21              26438488  0 +  50472720 C
e saiBol1.JH378168            8643585  0 +  13128814 C

a score=2140639.000000
s hg38.chr21_GL383579v2_alt     29598 322 +    201197 AACTTATTTCTAAGGTTATTCTGATAGGCAAGTTATTTATTGGAAATTATGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGTCCTTTTGCT----TTTCTTCGAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATGTA--TTTTAACATATTT-TAGCGTGATAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAATTTACTTTGCATTTATATATCATATAATATGAAGTTAATGTTTATTTTGTCTTATA-------ATGAATGATTTATAGAATTCTGGGAGTATGGATGGATTCTCGTGGTAATTT
s panTro5.chr21               8651992 322 +  33445071 AACTTATTTCTAAGGTTATTCTGATAGGCAAGTTATTTATTGGAAATTATGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGTCCTTCTGCT----TTTCTTCGAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATGTA--TTTTAACATATTT-TAGCATGATAGGAATTTTTGAGAAATTAATTTTAATAAGCatatatcaaatttattttgcatttatatattatataatatGAAGTTAATGTTCATTTTGTCTTATA-------ATGAATGATTTATAGAATTCTGGGAGTATGGATGGATTCTCGTGGTAATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187511 322 +  46275980 AACTTATTTCTAAGGTTATTCTGATAGGCAAGTTATTTATTGGAAATTATGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGTCCTTCTGCT----TTTCTTCGAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATGTA--TTTTAACATATTT-TAGCATGATAGGAATTTTTGAGAAATTAATTTTAATAAGCatatatcaaatttattttgcatttatatattatataatatGAAGTTAATGTTTATTTTGTCTTATG-------ATGAATGATTTATAGAATTCTGGGAGTATGGATGGATTCTCGTGGTAATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170062 321 -  13858734 AACTTATTTCTAAGGTTATTCTGATAGGCAAGTTATTTATT-GAAATTATGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGTCCTTCTGCT----TTTCTTCGAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATGTA--TTTTAACATATTT-TAGCGTGATAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAATTTATTTTGCATTTATATATTATATAATATGAAGTTAATGTTTATTTTGTCTTATA-------ATGAATGATTTATAGAATTCTGGGAGTATGGATGGATTCTCGTGGTAATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216162 322 +  32716333 AACTTATTTCTAAGGTTATTATGATAGGCAAGTTATTTATTGGAAATTACGAATTTAGCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTAGTCTTTCTGCT----TTTCTTCAAAACTGTTATGC-TTTTCATAATTCTAACCAATTTATATA--TTTTAACATATTT-TAGCATGAGAGGAATTTTTGAGAAATTAATTTTAATAAGCatatatcaaatttattttgcatttatatattatataatatgaagttaatgtttattttgttttata-------atgaatgatttataGAATTCTGGGAGTATGGATAGATTCTCATGGTAATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160613902 322 - 185818997 AATGTATTTCTAAGGTTATTCTTAAAGGCAAGTTATTTATTGGAAATTATGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATATA--TTTCAACATATCT-TAGTGTGACAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAAtttattttgcatttatatattttataatatgaagttaatgtttattttgttttatA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGGATTCTCGTGGTAATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167250877 322 - 192294377 AATGTATTTCTAAGGTTATTCTTAAAGGCAAGTTATTTATTGGAAATTACGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAATTGTTATAA-TTTTCATAATTCTAACCAATTTATATA--TTTTAACATATCT-TAGTGTGACAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAATTTATTTTGCATTTATATATTTTATAATATGAAGTTAATGTTTATTTTGTTTCATA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGGATTCTCATGGTAATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4874763 322 -  30496662 AATGTATTTCTAAGGTTATTCTTAAAGGCAAGTTATTTATTGGAAATTACGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAACTGTTATTA-TTTTCATAATTCTAACCAATTTATATA--TTTCAACATATCT-TAGTGTGACAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAAtttattttgcatttatatattttataatatgaagttaatgtttattttgttttatA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGTATTCTCGTGGTAATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13398158 322 +  21915920 AATGTATTTCTAAGGTTATTCTTAAAGGCAAGTTATTTATTGGAAATTACGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAACTGTTATAA-TTTTCATAATTCTAAACAATTTATATA--TTTCAGCAGATCT-TAGTGTGACAGGAATTTTTGAGAAATTAATTTTAATAAGCCTATATCAAAtttattttgcatttatatattttataatatgaagttaatgtttattttgttttatA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGGATTCTCGTGGTAATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19899823 322 -  90373283 AATGTATTTCTAAGGTTATTCTTAAAGGCAAGTTATTTATTGGAAATTACGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATATA--TTTCAGCATATCT-TAGTGTGACAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAAtttattttgcatttatatattttataatatgaagttaatgtttattttgttttatA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGGATTCTCGTGGTAATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3402688 322 +   7543664 AATGTATTTCTAAGGTTATTCTTAAAGGCAAGTTATTTATTGGAAATTATGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATATA--TTTCAGCATATCT-TAGTGTGACAGGAATTTTTGAGAAATTAATTTTAATAAGCCTATATCAAAtttattttgcatttatatattttataatatgaagttaatgtttattttgttttatA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGGATTCTCGTGGTAATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5164286 320 -  13750039 AATGTAATTCTAAGGTTATTCT--AAGGCAAGTTATTTACTGGAAATTACGAATTTACCTTCCTACCATTTATCTGGCTGAGT----CTGATTACTTTGACCTTCTGCT----TTTCTTCAAAACTGTTATAA-TTTTCATAATTCTAACCAATTTATATA--TTTTAACAGATCT-TAGCATGGCAGGAATTTTTGAGAAATTAATTTTAATAAGCATATATCAAACTTATTTTGCATTTATATATTTTATAATATGAAGTTAATGTTTATTTTGTTTTATA-------ATGAATGATTTATAGAATTCTGGGAGTATGAATGGATTCTCGTGGTAATTT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24814586 329 -  38779656 CACTTATTTCTGAGGCTGTACTTGTAAGCAAATTATTTACTGAAAAGTACAGATCGATCTTTCTACTATTTGTATTTCCAGACCTAACTGATGACTTAAATACTTTGTTGCACTGTTTTCAAAACTGTTATAT-GTTTCATAATTCTAATCAATTTTTATA--TATTAATGTACTT-GAGTGATACAGAAATATCTGAGGAATTAATTTTAATAAGCATATGTAAAACTTATTTTGAA-TTACATATCATATACTGTGGGATTACTGTTTATTTTAAATTGTT-------GTGAGTGCTTTATAGAATTCTGTGAATATGAATAGATTCTGCTGGTAATTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17986249 321 +  39895921 AGTTTGTCTCTAAGGTTTTTCTGATGATCAAAGTATTTATTGCAAAGTACAGATTTA----CCTATCATTTATCATTCTGGG-----CTGATGATTTAAA-----TACT----TTGTTCCAAAATTGTTATGATTTTTCataattataattaatctacataatattttatatatttattCTGGGACAGAAATTTTTGAGAAAAGTA-TTTAATAGGGATATATCACATTTATTCTGGG-TTGCATATTATGTATTATGAGGTTAAAGTGTATTTTAATCTATTTATTTTCATGTGTGTTCTGTCCAGCTCCAGGAATATGAATGGAACCTAATAGTAATTT
i canFam3.chr31             I 584 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765   2 -  14377064 I
e aotNan1.NW_018487195v1      9104313  45 -   9889416 I
e calJac3.chr21              26438488   0 +  50472720 C
e saiBol1.JH378168            8643585   0 +  13128814 C

a score=9090.000000
s hg38.chr21_GL383579v2_alt     29920 1 +    201197 A
s panTro5.chr21               8652314 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187833 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170383 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216484 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614224 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251199 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875085 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13398480 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900145 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403010 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5164606 1 -  13750039 A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26438488 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8643585 1 +  13128814 A
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24814915 1 -  38779656 A
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17986570 1 +  39895921 G
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cebCap1.NW_016107322v1     13865765 2 -  14377064 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I

a score=107357.000000
s hg38.chr21_GL383579v2_alt     29921 9 +    201197 CATATCTCT
s panTro5.chr21               8652315 9 +  33445071 CATATCTCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187834 9 +  46275980 CATATCTCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170384 9 -  13858734 CATATCTCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216485 9 +  32716333 CATATCTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614225 9 - 185818997 CATATCTCT
i rheMac8.chr3              C 0 I 46
s macFas5.chr3              167251200 9 - 192294377 CATATCTCT
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4875086 9 -  30496662 CATATCTCT
i macNem1.NW_012015021v1    C 0 I 46
s cerAty1.NW_012002954v1     13398481 9 +  21915920 CATATCTCT
i cerAty1.NW_012002954v1    C 0 I 46
s chlSab2.chr2               19900146 9 -  90373283 CATATCTCT
i chlSab2.chr2              C 0 I 46
s manLeu1.NW_012103476v1      3403011 9 +   7543664 CATATCTCT
i manLeu1.NW_012103476v1    C 0 I 46
s colAng1.NW_012120598v1      5164607 9 -  13750039 CGTATCTCT
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26438489 9 +  50472720 CATATCTCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8643586 9 +  13128814 CGTATCTCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13865767 9 -  14377064 CATATCTCT
i cebCap1.NW_016107322v1    I 2 C 0
s otoGar3.GL873528           24814916 9 -  38779656 CATGTCTCT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17986571 9 +  39895921 CATATTTCT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I

a score=129227.000000
s hg38.chr21_GL383579v2_alt     29930 34 +    201197 CTTAATACATCACCTGTGCATATCAGCCCTAAGA
s panTro5.chr21               8652324 34 +  33445071 CTTAATACATCACCTGTGCATATTAGCCCTCAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187843 34 +  46275980 CTTAATACATCACCTGTGCATATTAGCCCTCAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170393 34 -  13858734 CTTAATACATCACCTGTGCATATCGGCCCTCAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216494 34 +  32716333 TTTAATACATCACCTGTGCATATCAGCCCTCAGA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167251210 34 - 192294377 ATGTATTAATCACCTATGTGTATCAGCCCTCAGA
i macFas5.chr3              I 1 C 0
s colAng1.NW_012120598v1      5164617 34 -  13750039 ATGTATTAATCACCTGGGTATATCAGCCCTCAGA
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26438498 34 +  50472720 GTTAATACAGCACCTGTGTGTATTAGCCCCAAGA
i calJac3.chr21             C 0 I 5
s saiBol1.JH378168            8643595 34 +  13128814 GTTAATACATCACCTGTGTGTATTAACCCCAAGA
i saiBol1.JH378168          C 0 I 5
s cebCap1.NW_016107322v1     13865776 34 -  14377064 GTTAATACATTACCTGTGTGTATTAGCCCCCAGA
i cebCap1.NW_016107322v1    C 0 I 5
s otoGar3.GL873528           24814925 34 -  38779656 GTTAATATCTCACCTGTGTTTAACGGCCTCCAGA
i otoGar3.GL873528          C 0 I 5
s canFam3.chr31              17986580 33 +  39895921 GTAAGTACATTGCCTGTGT-TATCAACCATCAGA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e rheMac8.chr3              160614234 46 - 185818997 I
e aotNan1.NW_018487195v1      9104313 45 -   9889416 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=39514.000000
s hg38.chr21_GL383579v2_alt     29964 10 +    201197 ATATAAGTAA-
s panTro5.chr21               8652358 10 +  33445071 ATATAAGTAA-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187877 10 +  46275980 ATATAAGTAA-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170427 10 -  13858734 ATATAAGTAA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216528 10 +  32716333 ATATAAGTAA-
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167251244 10 - 192294377 ATATGATACA-
i macFas5.chr3              C 0 I 1
s colAng1.NW_012120598v1      5164651 10 -  13750039 ATATGATACA-
i colAng1.NW_012120598v1    C 0 I 5
s calJac3.chr21              26438537 10 +  50472720 ATATAAGTAA-
i calJac3.chr21             I 5 C 0
s saiBol1.JH378168            8643634 10 +  13128814 ATATAAGTAA-
i saiBol1.JH378168          I 5 C 0
s cebCap1.NW_016107322v1     13865815 10 -  14377064 ATATAAGTAA-
i cebCap1.NW_016107322v1    I 5 C 0
s aotNan1.NW_018487195v1      9104358 10 -   9889416 ATATAAGTAA-
i aotNan1.NW_018487195v1    I 45 C 0
s otoGar3.GL873528           24814964 10 -  38779656 ATGTAATTAA-
i otoGar3.GL873528          I 5 C 0
s canFam3.chr31              17986613 11 +  39895921 ATAAAATACAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e rheMac8.chr3              160614234 46 - 185818997 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=2989008.000000
s hg38.chr21_GL383579v2_alt     29974 744 +    201197  
s panTro5.chr21               8652368 742 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22187887 743 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8170437 739 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9216538 726 +  32716333  
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5164666 729 -  13750039  
i colAng1.NW_012120598v1    I 5 C 0
s calJac3.chr21              26438547 729 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8643644 734 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13865825 730 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9104368 729 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24814974 738 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17986624 829 +  39895921  
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2263142 16904 +   3081153 I
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=482964.000000
s hg38.chr21_GL383579v2_alt     30718 110 +    201197 catcac--ttt---gtaaaaatat-aaacatacatattatcactacaaaagcctaggttgatgatttga-agtgtga---taatgaac--aagattc-gtttgacagctcctattttctcatt
s panTro5.chr21               8653110 110 +  33445071 catcat--ttt---gtaaaaatat-aaacatacatattatcactacaaaagcctaggttgatgatttga-agtgtga---taatgaac--aagattc-gtttgacagctcctattttctcatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22188630 110 +  46275980 catcat--ttt---gtaaaaatat-aaacatacatattatcactacaaaagcctaggttgatgatttga-agtgtga---taatgaac--aagattc-gtttgacagctcctattttctcatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171176 109 -  13858734 CATCAT--TTT---GTAAAAATAT-AAACATACATATTATCACCACAAAAGCCTAGGTTGATGA-TTGA-AGTGTGA---TAATGAAC--AAGATTC-GTTTGACAGCTCCTATTTTCTCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217264 110 +  32716333 CATCAT--TTT---GTAAAAATATAAAACATACATAGTATCACTACAAAAGCTTAGGCTGATGATTTGA-AGTGTGA---TAATGAAC--AAGATTC-TGTTGACAGCTCCTA-TTTCTCATT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5165395 112 -  13750039 catcat--ttt---gtaaaaatacaaaacatacatattatcactactgaagcctaggctgatgatttga-agtgtga---taatgaac--aagattctgtttgacagctcctattttctcatt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26439276 112 +  50472720 cgtcat--ttg---gtaaaaatataaaacacacatatcatcactacagaagtctaggttgatgatttga-agtgtga---taatgaat--aagattctgtttgacagctcttattttctcgtt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8644378 112 +  13128814 catcat--ttg---gtaaaaatataaaacacatatgtcatcactacaaaagtctaggttaatgatttga-agtgtga---taatgaac--aagattctgtttgacagctctttttttctcatt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13866555 109 -  14377064 CATCAT--TTG---GTAAAAATATAAAACACACGTATCATCATTACAAAAGTCTAGGTTGATGATTTGA-AGTGTGA---TAATGAAC--AAGATTCTGTTTGACAGCTC---TTTTCTCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105097 112 -   9889416 catcat--ttg---gtaaaaatataaaacacacatatcatcactacaaaagtctaggttgatgacttga-agtgtga---taatgaac--aagattctgtttgacagctcttattttctcatt
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24815712 112 -  38779656 TTTCATCATTT---GTTGAAATAGAAAAAATAAAAGTTATCGCTGTAAGTGCACAGATTGGGGTCTC---AGTGTGA---TGATGAAC--AAGAACTTGGTTACCAGCTTCTCCTTTCTCACA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17987453 114 +  39895921 TGATAG--TTT---GCAAAAATAAAAAAGTGAGATGCTATCATTACAAATGCATAGATTCTTGATTTGA-TGTGCAA---TGATGAACAAAAGATTCAGTTTGACAGCTACTACtttttcttt
i canFam3.chr31             C 0 I 3865
s dasNov3.JH578070            2280046 115 +   3081153 CATCAT--TTTTAAACAGAAAAGTAGACAATACCTACTACTACTACAAATGCCTAGGTTCATTATTTCATGGTGTGAAGCTAAATAAC--AACAGCCTATTTGACAGCCTCTATTCCCT----
i dasNov3.JH578070          I 16904 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=478679.000000
s hg38.chr21_GL383579v2_alt     30828 123 +    201197 aaggtaagaggcCTTCGGAAAAATGTATGCGTAGGATTACTGGCATATTTAAAGCACATTTTAAATAAAA----ATTATATAT---------------TTTAC----ACTAGTTCTTCATATGATGAGAGCTTTAAAAATAGGAAA
s panTro5.chr21               8653220 123 +  33445071 aaggtaagaggcCCTCGGAAAAATGTATGCGTAGGATTACTGGCATATTTAAAGCACATTTTAAATAAAA----ATTATATAT---------------TTTAC----ACTAGTTCTTCATATGATGAGAGCTTTAAAAATAGGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22188740 123 +  46275980 aaggtaagaggcCTTCGGAAAAATGTATGCGTAGGATTACTGGCATATTTAAAGCACATTTTAAATAAAA----ATTATATAT---------------TTTAC----ACTAGTTCTTCATATGATGAGAGCTTTAAAAATAGGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171285 122 -  13858734 -AGGTAAGAGGCCTTAGGAAAAATGTATGCGTAGGATTACTGGCATATTTAAAGCACACTTTAAATAAAA----ATTATATAT---------------TTTAC----ACTAGTTCTTCATATGATGAGAGCTTTAAAAATAGTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217374 118 +  32716333 -AGGTAAGAG--CGTCGGAAAAAAGTATGTGTAGGA-TACTGGCATATTTAAAGCACATTTTAAATAAAA----ATTATATA----------------TGTAC----ACTAGTTCTTCATATGATGAGAGCTTTAAAAATAGGAAA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5165507 123 -  13750039 aaggtaagaggcCTTTGGAAAAATGTATGTGTAGGATTACTGGCATATTTAAAGCACATTTCAAGTAAAA----GTTATATAT---------------TTTAC----ACTAGTTCTTCATATGATGAGAACTTTAAAAATAGGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26439388 123 +  50472720 aaggtaagaCGTCTTCAGAAAAACGTATATGTAGGATTATTGTCATATTTAAAACACATTTTACATAAAA----AGTACACAT---------------TTTAC----ACTAGTTCTTCATATGATCAGAACTTTAAAAATAGGaaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8644490 122 +  13128814 aaggtaagaggcCTTCGGAAAAATGTATGTGTAGGATTATTGTCATATTTAAAATGCATTTCACAT-AAA----AGTACACAT---------------TTTAC----ACTAGTTCTTCATATGATCAGAACTTTAAAAATAGGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13866664 123 -  14377064 AAGTTAAGAGGCCTTCAGAAAAATGTATGTGTAGGATTATTGTCATATTTAAAACACACTTCACATAAAA----ATTTTACAT---------------TTTAC----ACTGGTTCTTCATATGATCAGAACTTTAAAAATAGGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105209 123 -   9889416 aaagtaagaGCCCTTCGGAAAAATGTATGTGTAGGATTACTGTCATATTTAAAATGCATTTTACATAAAA----AGTACACAT---------------TTTAC----ACTAGTTCTTCATATGATCAGAATTTTACAAATAGGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24815824 119 -  38779656 GACGTGAGACACTTTGGGGGAAATGTTTGTATAAAAGTAATGCCATATTCAAAACACTTT-------AAA----TTTATATAC---------------TGTGCACTAACTAGTTCTATATGGGATCGGAGCATTAAAAACAGG-AA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2280161 139 +   3081153 AAATTTAGAGGTATTAGGAATAGAGGATGTGTAGTGGTAGTTGCACATTCAAAACATTTTAAAAATGAAAAATCATTACATCTATCTATCTATCTATATTTTC----ACTAATTCT--ATGTTATTGGAAC-TTGAAAATAGGCAA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e canFam3.chr31              17987567 3865 +  39895921 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=1660895.000000
s hg38.chr21_GL383579v2_alt     30951 375 +    201197 ATATTTAACAAGA--TAATACTTA----TTTTTAGTCTGTGA-AATCATTTCCTGTAAGCTCTGAAGCAGAGATAATTATGTTCCACTAC--AAAAGGAGTTATTTGCTCTCCTGTTAATGTGGGTAAGAGATTTCCAGGGTTTTTGTAGG-TTTCTTATTTTCCTTTAAAAGTGA--AAACAAATATATAGCA-TT-TTTTTCTT--AGTCCTCT-TACTGAGGACTTCTAGCATGCCCTTGGTTATACAAATACATAATTGAGACGTATAGCAGACACTTCACTTAAACACAG----A----TTGGTTGTAGGCATAAGTAATCTGCAATATTTTTATAAATCCTAAACCAGCAAGCATAGTCATATATTCATAAAAAGTGAAGCAGCTAAGAAAACA
s panTro5.chr21               8653343 370 +  33445071 ATATTTAAC-------AATACTTA----TTTTTAGTCTGTGA-AATCATTTCCTGTAAGCTCTGAAGCAGAGATAATTATGTTCCACTAC--AAAAGGAGTTATTTGCTCTCCTGTTAATGTGGGTAAGAGATTTCCAGGGTTTTTGTAGG-TTTCTTATTTCCCTTTAAAAGTGA--AAACAAATATATAGCA-TT-TTTTTCTT--AGTCCTCT-TACTGATGACTTCTAGCATGCCCTTGGTTACAAAAATACATAATTGAGACGTACAGCAGACACTTCACTTAAACACAG----A----TTGGTTGTAGGCATAAGTAATCTGCAATATTTTTATAAATCCTAAACCAGCAAGCGTAGTCATATATTCATAAAAAGTGAAGCAGCTAAGAAAACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22188863 370 +  46275980 ATATTTAAC-------AATACTTA----TTTTTAGTCTGTGA-AATCATTTCCTGTAAGCTCTGAAGCAGAGATAATTATGTTCCACTAC--AAAAGGAGTTATTTGCTCTCCTGTTAATGTGGGTAAGAGATTTCCAGGGTTTTTGTAGG-TTTCTTATTTCCCTTTAAAAGTGA--AAACAAATATATAGCA-TT-TTTTTCTT--AGTCCTCT-TACTGATGACTTCTAGCATGCCCTTGGTTATAAAAATACATAATTGAGACGTACAGCAGACACTTCACTTAAACACAG----A----TTGGTTGTAGGCATAAGTAATCTGCAATATTTTTATAAATCCTAAACCAGCAAGCGTAGTCATATATTCATAAAAAGTGAAGCAGCTAAGAAAACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171407 375 -  13858734 ATATTTAACAAAA--TAATACTTA----TTTTTAGTCTGTGA-AATCATTTCCTGTAAGCTCTGAAGCAGAGATAATTATGTTCCACTAC--AAAAGGAGTTATTTGCTCTCCTGTTAATGTGGGTAAGAGATTTCCAGGGTTTTTGTAGG-TTTCTTATTTTCCTTTAAAAGTGA--AAACAAATATATAGCA-TT-TTTTTCTT--AGTCCTCT-TACTGATGGCTTCTAGCATGCCCTTGGTTATAAAAATACATAATTGAGACGTATAGCAGACACTTCACTTAAACACAG----A----TTGGTTGTAGGCATAAGTAATCTGCAATATTTTTATAAATCCTAAACCAGCAAGCATAGTCATATATTCATAAAAAGTGAAGCAGCTAAGAAAACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217492 376 +  32716333 ATATTTAACAAGA--TAATACTTA----TTTTTAGTCTGTGA-AATCATTTCCTGTAAGCTCTGAAGCAGAGATAATTATGTTCCACTAC--AAAAGGAGTTGTTTGTTCCCCTATTAATGTGGATAAGAGATTTCCAGGGTTTTTGTAGG-TTCCTTATTTTCCTTTAAAAGTGA--AAACAAATATATAGCATTT-TTTTTCTT--AGTCCTCT-TTCTGATGACTTCTAGCATGCCCTTGGTTATAAAAATAAATAATTGAGACATATAGCAGACACTTCACTTAAACACAG----A----TTGGTTGTAAGCATAAATAATCTGCAGTATTTTTATAAATCCTAAACCAGCAAGCATAGTCATGTATTCATAAAAAGTGAAGCAGCTAAGAAAACA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5165630 376 -  13750039 ATATTTAACAAGG--TAATACTTA----TTTTTAGTATGTGA-AATCATTTACTATAAGCTCTGAAGCAGAGATAATTATGTTCCACTAC--AAAAGGAGTTATTTGCTCTCCTATTAATGTGGATAAGAGATTTTCAGGGTTTTTGTAGG-TTTCTTATTTTCTTTTAAAAGTGA--AAACGAATACATAGCA-TTGTTTTTCTT--AGTCCTCT-TCCTGATGACTCCTAGCACGCCTTTGGTTATAAAAACAAATAATTGAGACATATAGCAGACACTTCACTTAAACACAG----A----TTGGTTGTAGGCATAAATAATCTATAATATTTTTATAAATCCTAAACCAGCAAGCATAGTCATATATTTATAAAAAGTGAAGCAGCTAAGAAAACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26439511 373 +  50472720 atatttaacaaag--taatttttaaatttttttaGTCCACGA-GACCGTTTCTTGCAAGCTCTGAAATGGAGATAA-TATGCTCCATTAA--GAAAGGAGTTATTTTCTCTCCTATTAATGTGGAAAAGAGATTGCAAGGGCTTCTGTAGG-TTTCTTGTTTTCCTTT-AAAGTGG--AAACAGATATATATAA-TT-TTTTCCTT--AGTCCTCT-TACTAATGACTTCAAGCATG-CTTTGGTTCTAAAGATACATAATTGAGATGTATAGCAGACACTTTGCTTAAACACAG----A----TTGGTTATGGGCataaataatctataatatttttataaatCCTAAACCAGCAAGCATAATC--ATATTCAT-AAAAGTGAAGCAGCTGAGTAAACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8644612 376 +  13128814 ATATTTAACAAAG--TCATTTTTAAATGTTTTTAGTCCGTGA-AACCATTTCTTGCAAGCTCTGAAACAGAGATAA-TATGCTCCACCAA--GAAAGGAGTTATTTGCTCTCCTATTAATGTGGAAAAGAGATTTCCAGGGCTTCTGTAGA-TTTCTTATTTTCCTTT-AAAGTGG--AAACAGATATATAGAA-TT-TTTTCCTT--AGTCCTCT-TACTAATAACTTCTAGCATGCCTTTGGTTATAAAGATAGATAATTGAGATGCATAGCAGACACTTTTCTTAAACACAG----A----TTGGTTGTAGGCATAAATAATCTATAATATTTTTGTAAATCCTAAACCAGCAAGCATAGTCTTATATTCAT-AAAAGTGAAGCAGCTGAGTAAACA
i saiBol1.JH378168          C 0 I 153
s cebCap1.NW_016107322v1     13866787 377 -  14377064 ATATTTAACAAAG--TAATTTTTAAATTTTTTTAGTTCATGA-AACCATTTCTTGCAAGCTCTGAAATGGAGATAA-TATGCTCCACTAA--GAAAGGAGTTATTTGCTCTCCTATTAAGGTGGAAAAGAAATTTCCAGGGCTTCTGTAGGTTTTTTTATTTTCCTTT-AAAGTGG--AAACAGATATATAGAA-TT-TTTTCCTT--AGTCCTCT-TACTAATGACTTCTAGCATGCCTTTGGTTATAAAGATAGATAACTGAGATGTATAGCAGACACTTTGCTTAAACACAG----A----TTGGTAGTAGCCATAAATAATCTATAATATGTTTATAAATCTTAAACCAGCAAGCATAGTCATATATTCAT-AAAAGTGAAGCAGCTAAGTAAACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105332 376 -   9889416 ATATTTAACAAAG--TAATTTTTAAATTTTTTTAGTCCATGA-AACGATTTCTTGCAAGCTCTGAAACAGAGATAA-TATGCTCCACTAA--GAAAGGAGTTATTTGCTCTCCTATTAATGTGGAAAAGAGATATCCAGGGCTTCTGTAGG-TTTCTTATTTTCCTTT-AAAGTGG--AAACAGATATATAGAA-TT-TTTTCCTT--AGTCCTCT-TACTAGTGACTTCTATCATGCCTTTGGTTACAGAGACAGATAATTAAGATGTATAGCAGACACTTTGCTTAAACACAG----G----TTGGTTGTAGGCATAAATAATCTATAATATTTTTATATATCCTAAACCAGCAAGCATAGTCATATATTCAT-AAAAGTGAAGCAGCTAAGTAAACA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24815943 356 -  38779656 ATATTTAGCTAGGAATAATTGCCA-------------CATGACAACTACTTCCTCTAAGCTCTGAAGAAGAGTTAATTATGTCCTACTACAAAAAAGAAATTCTTAGCTTT--TATTAATAT-GATAAGAGATTTCTGGGGC-TCTGTGGG-ATCTTTGTTCTCTTTTTAAGACAA--AAACAAATACGTAGCA-TT-TTTTAC------TCCTCT-TGCTGATGAAAG-TAGGATTACCTGGATGATAAAAATG-ATAACTGAGACTTAGACCAGACA-----CTTAATCACAA----A----TTGTTTGTAGCCATGAATGATCTAGAATATTTTAGTAATCTCTAAAACAGCAAACATAGTCATGTATTCATAGGACACGAAGCAGCAGAGAAAGTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17991432 362 +  39895921 atcccTAACTAAC--GAATATTAA-----TTTCACCCTCTGA-AATAACATCCTCAAAGCTTTGAAACAGATATTATTATATCCCAC-----AAAAAGAGTACTTTGCTCA--AATAAATGTAGATAAG--ATTTCCAGGGATTTTGTCTG-TCCTTTAGTTTCCCTTAAA-------AAAAAAATATGTGGCA-AT-TTTTCCTA--AATCTTTTCTACTAATGAATAGCAGCATTCCCTTGTTTATAAAATTGGGTAATGAGGACTTATCACAGATA-----CTTAAACATGGGTTCA----TTGGTTGCAGGCAAGAATAATCTAGATTATTTTCATAAACTCTAAAGCTGCAAGCATAGTGATACATTTATAAGAAGTGAAGCAGGTAAGAAAGCA
i canFam3.chr31             I 3865 C 0
s dasNov3.JH578070            2280300 372 +   3081153 AGATCTAACTAAA--TGATATTAA----TATTTTCTCATTGA-AATTATTTTTTCTAAGTTCTGAGACAAAGAAAATCATATCATTTTAT--AAAAAGAATTGTTT----TCATATAAATGTTTATATAAGATTTCCAGAGCTTTTGTGTG-CCTC-TATGTTCCTTTAAAAAGAAATAAATAAAGCTGTAGCA-TT-TTTTAAATGAATTCCTCC-TCCTAGTGAATGTGAGGATTCCCTTAATTATAAAAATAGAAACTTGAGGCTTATGGCAGATA-----CTTAAACATAG----ATCACTTGGTTGTAGGCATGAAAGACCGAGACTGTTTTCATAAACTCTAAAG-GGCAAGCATAGTCAGATATTCATAGGAAGCAATGCAGCTAAGAAAGCA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=99544.000000
s hg38.chr21_GL383579v2_alt     31326 16 +    201197 TGGGCAACAATATTTT
s panTro5.chr21               8653713 16 +  33445071 TGGGCAACAATATTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22189233 16 +  46275980 TGGGCAACAATATTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171782 16 -  13858734 TGGGCAACAATATTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217868 16 +  32716333 TGGGCAACAATATTTT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166006 16 -  13750039 TGGGCAACAATACTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26439884 16 +  50472720 TGTGCAACAATATTTT
i calJac3.chr21             C 0 I 740
s saiBol1.JH378168            8645141 16 +  13128814 TGTGCAACAATATTTT
i saiBol1.JH378168          I 153 C 0
s cebCap1.NW_016107322v1     13867164 16 -  14377064 TGTACAACAATATTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105708 16 -   9889416 TGTGCAACAATATTTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24816299 16 -  38779656 TGGGCAACAATATTTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17991794 16 +  39895921 TAGACAACAATATTTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2280672 16 +   3081153 TAGACAACAATATTTT
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=282403.000000
s hg38.chr21_GL383579v2_alt     31342 61 +    201197 CAACTAAAATATCATGCAACACGATGGTTTTTGAGTAATTATCAGAGACTGATACAAGGGA
s panTro5.chr21               8653729 61 +  33445071 CAACTAAAATATCATGCAACACGATGGTTTTTGAGTAATTATCAGAGACTGATACAAGGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22189249 61 +  46275980 CAACTAAAATATCATGCAACACGATGGTTTTTGAGTAATTATCAGAGACTGATACAAGGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171798 61 -  13858734 CAACTAAAATATCATGCAACACGATGGTTTTTGAGTAATTATCAGAGACTGATACAAGGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217884 61 +  32716333 CAACTAAAATATCATGCAACATGATGGTTTTTGAGTAATTATCAGAGACTGATACAAGGGA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166022 61 -  13750039 CAACTAAAATATCATGCAACAGGATAGTTTTTGAGTAATTATCAGAGACTGATACAAGGGA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8645157 61 +  13128814 CAACTAAAATATCATGCAACAGGATGATGTTGGGGTAATTATCAGAAATTGACACAAAGGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13867180 61 -  14377064 CTACTAAAATATCATGCAACAGGATGATTTTGGGGTAATTATCAGAAATTGACACAAGGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105724 61 -   9889416 CAACTAAAATATCATTCAACAGGATCATTTTGGGGTAATTATCAGAAATTGACACAAGGGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24816315 61 -  38779656 CAATTAATACATCATGTAATATGATGGTTTTCCAGTAATTATCAGAGATTGACACAAGGGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17991810 60 +  39895921 CAATCAAAATACCATGTAATATGATGATTTTTGTGTAATTATCAGAGACTGACACTGGGA-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2280688 61 +   3081153 CAATTAAAATTTCATATAATATGATCGCTCTTGAATAATTTTCAGAGACAGACACATGGGA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e calJac3.chr21              26439900 740 +  50472720 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=173909.000000
s hg38.chr21_GL383579v2_alt     31403 29 +    201197 AGTATTCTCTTAATCAGAGAGTTTTGATT
s panTro5.chr21               8653790 29 +  33445071 AGTATTCTCTTAATCAGAGAGTTTTGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22189310 29 +  46275980 AGTATTCTCTTAATCAGAGAGTTTTGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171859 29 -  13858734 AGTATTCTCTTAATCAGAGAGTTTTGATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217945 29 +  32716333 AGTATTCTCTTAATCAGAGAGTTTTGATT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166083 29 -  13750039 AGTATGCTTTCAATCAGAGAGTTTTCATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26440640 29 +  50472720 agtattcttttaatCAGAGAGTTTTGATT
i calJac3.chr21             I 740 C 0
s saiBol1.JH378168            8645218 29 +  13128814 AGTATTCTTTTAATCAGAGAGTTTTTATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13867241 29 -  14377064 AGTATTATTTTAATCAGAGAGTTTTGATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105785 29 -   9889416 AGTATTCTTTTAATCGGAGAGTTTTGATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24816376 29 -  38779656 AGTAGTCTCCTAATCAGAGAGTTTTGATT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17991870 28 +  39895921 AGTA-TCTCCTAATCAGAGAATTTTGATT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2280749 29 +   3081153 AATATTCTCCTAATCAGACAATTTTGATT
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=933182.000000
s hg38.chr21_GL383579v2_alt     31432 247 +    201197 AATTTAATCACACTTTCACTGTGCCTATGAAAATAATGTCTCCACTGGTGTTCTAATTTGAAACAACAGACTCTTTTTATTATTGAATGA----AAGGTACCAGTCATAATGATAGTATTATGGCTGAATATTCAGTCCTGAAAAGTAATATGACAGAAATAATAAAGTTGATTACCAAAAAAGGAAAGTGAACATTCACTGACATATATTCAC-CTGGCAAAATAATAGTCATCACTAGCCAGTG-----------ATGGAG
s panTro5.chr21               8653819 247 +  33445071 AATTTAATCACACTTTCACTGTGCCTATGAAAATAATGTCTCCACTGGTGTTCTAATTTGAAACAACAGACTCTTTTTATTATTGAATGA----AAGGTACCAGTCATAATGATAGTATTATGGCTGAATATTCACTCCTGAAAAGTAATATGACAGAAATAATAAAGTTGATTACCAAAAAAGGAAAGTGAACATTCACTGACATATATTTAC-CTGGCAAAATAGTAGCCATCACTAGCCAGTG-----------ATGGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22189339 245 +  46275980 AATTTAATCACACTTTCACTGTGCCTATGAAAATAATGTCTCCACTGGTGTTCTAATTTGAAACAACAGACTCTTTTTATTATTGAATGA----AAGGTACCAGTCATAATGATAGTATTATGGCTGAATATTCACTCCTGAAAAGTAATATGACAGAAATAATAAAGTTGATTACCAAAAAAGGAAAGTGAACATTCACTGAC--ATATTTAC-CTGGCAAAATAGTAGCCATCACTAGCCAGTG-----------ATGGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8171888 247 -  13858734 AATTTAATCACACTTCCACTGTGCCTATGAAAATAATGTCTCCACTGGTGTTCTAATTTGAAACAACAGACTCCTTTTATTATTGAATGA----AAGGTACCAGTCATAATGATAGTATTATGGCTGAATATTCACTCCTGAAAAGTAATATGACAGAAATAATAAAGTGGATTACCAAAAAAGGAAAGTGAACATTTACTGACATATATTTAC-CTGGCAAAATAATAGTCATCACTAGCCAGTG-----------ATGGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9217974 219 +  32716333 AATTTAATCACACTTTCACTGTGCCTATGAAAATAATGTCTCCACTGGTGTTCTAATTTGAAACAACAGGTTCCTTTTATTATTGAATGAAAGGAAGGTGCCAGTCATAATGATAGTATTATGGCTGAATATTCACTCCTGGAAAGTAATATGACAGAAATAATAAAGTTGATTACCAAAAAAGGAAAGTGAACATTCACTGAC---------------------------------TAGCCAGGA-----------ATGGAG
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26440669 222 +  50472720 AATGTAATCACACTCGCACTATGCCTATGAATATCATGTCTCCATTGGTGTTCCAATTTGAAACAACAGGTTCCTTTTATTATTGAA-----------------------------TATTATGGCTGAATATTCACTCTTGTAAAGCAGTATGAAAGAAATAATAAAGTTGATTACTAAAAAAGGAAAGTGAACTTTCATTGACATATATTTAC-CTGGCAAAATAATAGTCATCCCTAGCCAGGG-----------ATGGAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8645247 220 +  13128814 AATGTAATCACACT--CACTATGCCTATGAATATCATGTCTCCACTGGTGTTCCAATTTGAAGCAACAGGTTCCTTTTATTATGGAA-----------------------------TATTATGGCTGAATATTCACTCTCAAAAAGCAATATGACAGAAATAATAAAGTTGATTACCAAAAAAGGAAAGTAAACATTCATTGACATATATTTAC-CTGGCAAAATAATAGTCATCCTCAGCCAGGG-----------ATGGAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13867270 222 -  14377064 AATGTAATCACACTCTCACTATGCCTATGAATATCATGTCTCCATTGGTGTTTCAATTTGAAACAACAGTTTCCTTTTATTATTGAA-----------------------------TATTATAGCTGAATATTCACTCTTGAAAAGCAATATGACAGAAATAATAAAGTTGATTACCAAAAAAGGGAAGTGAACACTCATTGACATATATTTAC-CTGGCAAAATAATAGTTATCCCTAGCCAGGT-----------ATGCAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9105814 222 -   9889416 AATGTAATCACACTCTCACTAGGCCTATGAATATCATGTCTCCATTGGTGTTCCAATTTGAAACAACAGGTTCCTTTTATTATTGAA-----------------------------TATTATGGCTGAATATTCACTCCTGAAAAGCAATATGACAGAAATAATAAAGTTGATTATCAAAAAAGGAAAGTGAACATTCATTGACATATATTTAC-CTGGCAAAATAATAGTCATCCCTAGCCAGGG-----------ATGGAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24816405 251 -  38779656 AATCTAATCACTCCTTCACTGTGCCTATGCAAATAATGTCCCCATTGGTGTTCTAATTTGAAACAACAGTTTTCTTTTATTAATGAATAA-AGGAAGTTACCAGTAATAACAAAAGTATCACAGCTGCCTATTAAATTCTG-AAAGCAATATGACAGATAGAAAAAAGTTGATTACTAAAAGGGGAAAACGAAAGTGAGTAGATATATATTTAC-CTGGCAAAATTCTACTCGTAACTAAACAGGGTC---------ATGGAG
i otoGar3.GL873528          C 0 I 9
s canFam3.chr31              17991898 259 +  39895921 AATCTAATCACTCCTTCACTATACCTATGCAAATAATGTCTCCACTGGTGTTCTAATTTGAAACAACAGGTTTCTTTTATTAATGAATAAAAGGAAGTTACCAGTGATAATGGCAGCACTATGGCT-AATATTAAAATCTGGAAAGCAACGTGACAGGAATAATGAAGTTGATTGCTAAAA--GAAAAATGAAAGCTCACTGAAA-ATATTTACTCAGGCAAAACTGTAGTCATCACTAGGCAGGACCATGTCTATAATGGAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2280778 258 +   3081153 TATCTAATGAGTCCTTCACTGTGCCTATGCAAATAATGTCCCCATTGGTGTT--GATTTGAAAGAACAGATTTCTTTTATTAATGAATAAAAGAAAGTTAGTGGTAATAATGACAGCATTATAGC-AAATATTAAAATCTGAAAGGGAACATGACAAAAA-AATAAAGTCAATTACTGAAAGGGGGAAATAAAAGCTCATTGACA-ATATTTACTAAGGCAAAATTCTAGTCATCAATAACCAGAGTCATGTAGATAATGGAA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e colAng1.NW_012120598v1      5166112   0 -  13750039 C
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=951554.000000
s hg38.chr21_GL383579v2_alt     31679 209 +    201197 AAAGACATTGTCCAATTAA------ATATACTGTTTTTGGTTCTGAGTCTGTTGAATGCCAATTA-TTTTT----------GTCCCGTTTGTAGATATATCACACATTCGGAGCATAAATACATTTCTTTAAAATAATTTTATA----TGTCAATATTTATACATTGTTACT---ATTTA-CTAGATTATCAACTTTATTTCCCTCCCTATTCTCGACTAT-GTTTATGTTGTTT
s panTro5.chr21               8654066 209 +  33445071 AAAGACATTGTCCAATTAA------ATATACTGTTTTTGGTTCTGAGTCTGTTGAATGCCAATTA-TTTTT----------ATCCCATTTGTAGATATATCACACATTCGGAGCATAAATACATTTCTTTAAAATAATTTTATA----TGTCAATATTTATACATTGTTACT---ATTTA-CTAGATTATCAACTTTATTTCCCTCCCTATTCTCGACTAT-GTTTATGTTGTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22189584 209 +  46275980 AAAGACATTGTCCAATTAA------ATATACTGTTTTTGGTTCTGAGTCTGTTGAATGCCAATTA-TTTTT----------ATCCCGTTTGTAGATATATCACACATTCGGAGCATAAATACATTTCTTTAAAATAATTTTATA----TGTCAATATTTATACATTGTTACT---ATTTA-CTAGACTATCAACTTTATTTCCCTCCCTATTCTCGACTAT-GTTTATGTTGTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8172135 209 -  13858734 AAAGACATTGTCCAATTAA------ATATACTGTTTTTGGTTCTGAGTCTGTTGAATGCCAATTA-TTTTT----------ATCCCATTTGTAGATACATCACACATTCGGAGCATAAATACATTTCTTCAAAATAATTTTATG----TGTCAATATTTATACATTGTTACT---GTTTA-CTAGATTATCAACTTTATTTCCCTCCCTATTCTCGACTAT-GTTTATGTTGTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9218193 209 +  32716333 AAAGACATTGTGCAATTAA------ATATACTGTTTTTGGCTCTGAGTCTGTTGAATGCCAATTA-TTTTT----------ATCCCGTTTGTAGATATATCACACATTCGGAGCATAAATACATTTCTTTAAAATAATTTTATA----TGTCAGTATTTATACATTGTTACT---ATTTA-CTAGATTATCAACTTTATTTCTCTCCCTATTCTCAACTAT-GGTTATGTTGTTT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166112 207 -  13750039 AAAGACATTGTCAAATTAA------ATATACTGTTTTTGGTTCTCAGTCTGTTGAATGCCAATTATTTTTT----------ATCCTGTTTGTAGATATATCACACATTCAGAGCATAAGTACATTTCTTTAAAATAATTTTATA----TGTCAATATTTATACATTGTTACT---ATTTA-CTAGATTAT---CTTTATTTCTGTCCCTATTCTTGACTAG-GGTTATGTTGTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26440891 211 +  50472720 AAAGACACTGCTCAATTAA------ATATACCATTTTTGGTTCTGCGTCTGTTGAATGCCAGTTT-TTTTTTT-------AATCCCATTTGTAGATATATCACACATTAGGAGCATAAATACA-TTCTTTAAAATAATTTTATA----TGTCATTATTTATGTATTGTTACT---ATTTA-ATAGATTATCAACTTTATTTCCCTTTCTATTCTGAACTAT-GGTTATGTTGTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8645467 218 +  13128814 AAAGACATTGCTCAATTAA------ATATACTGTTTTCGGTTTTAAGTCTGTGGAATGCCCGTTT-TTTTTTTTTTTTTAAATCCCATTTGTAGATATATCACACATTAGGAGAATAAATACG-TTCTTTAAAATAATTTTGTA----TGTCAATATTTATGCATTGTTACT---ATTTA-ATAGATTATCAACTTTATTTCTCTTTCTATTCTCAACTAT-GGCTATGTTGTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13867492 207 -  14377064 AAAGACACTGCTCAATTAA------ATATACTGTTTTTGGTTCTGAGTCTGTTGAATGCCAGTTT-TTTTTTT-------AATCCCATTTGTAGATATATCACATATTAGGAGCATAAATACG-TTCTTTAAAATAATTTTATA----TGTCAATATTTATGCATTGTTACT---ATTTA-ATA----ATCAACTTTATTTCCCTTTCTATTTTCAACTCT-GGTTATGTTGTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106036 209 -   9889416 AAAGACACTGCTTAATTAA------ATATACTGTTTTTGGTTCTGAGTCTGTTGAATGCCAGTTG-TTTTT---------AATCCCATTTGTAGATATATCACACATTAGGAGCATAAATACA-TTCTTTAAAATAATTTTATA----TATCAATATTTATGCATTGTTACT---ATTTA-ATAGATTATCACCTTTATTTCCCTTTCTATTCTCAACtat-ggttatgttgttt
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24816665 209 -  38779656 GAAGGCATTCCACTATTAAATACTCATATGATGTTTCTGGTC---------TCGAGGGCCAATTA-TTTTC----------ATCCTTCTTGTAAATAAATCATACATTAGGAGTATAAGTAAGTTCCTTTAAAGTAATTTCAAA----TATTATTACACATATATTGTTATTATCATTTA-TTGGATTGTCCACTTTATTCTCCTTCTAACCCACAACTAG-CATTATCTTGTTT
i otoGar3.GL873528          I 9 I 711
s canFam3.chr31              17992157 206 +  39895921 AAAGACATTCTCAAATTAA------ATATGCTG-TCCTGGTTCTGAGTCTTTTGAATACTAATTA-TTTTC----------ATCTT-TTTATAAACAAATCACATATTAGGA-CATAAATAAGTTGTTTTGAAGTAATTTTAGA---TTACCATTAAATGTACA---TTACT---ATTTATATACATTGTCAACTTTGTCTCCCTTACCACCTACAACTAGAATTTGTCTTGTTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2281036 211 +   3081153 AAAGACATTCTTACATTAA------ATGTGCTGTGTATGGTTC--AGTCTTTTGAGTGCCAATTA-TGTTA----------AACCT-TTTGAAAATAAATCACACATGAGAAACATGAACACGTTCCTTCaaaataatagtaaattattattaaatctaacatgttattatt---attta-ataGATTGTAAATTTTGCCTTGCTCCTTTCCCTCTCCTGGAGTCTACTTTGTTT
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=947385.000000
s hg38.chr21_GL383579v2_alt     31888 220 +    201197 TCATGTTATGTCATTAACTATTCACAAAGCTG-------ATTAAAATAAACTGATTCTAAAACAGATTTACAGCT-ATATGAGTCACTTATTTTTAATCTAGAAAACATAAATACATGCCCTCCAGAAGACACGGTAGTTTATTGACACAAGGAAATGCCGGTGGGATCTTT-AAAGTGTATGCAGATCT-AAATCC-AGGCACATCAAAACCCAGGTGTTGAAATGCTAT
s panTro5.chr21               8654275 220 +  33445071 TCATGTTATGTCATTAACTATTCCCAAAGCTG-------ATTAAAATAAACTGATTCTAAAACAGATTTACAGCT-ATATGAGTCACTTATTTTTAATCTAGAAAACATAAATATATGCCCTCCAGAAGACACGGTAGTTTATTGACACAAAGAAATGCCACTGGGATCTTT-AAAGTGTATGCAGATCT-AAATCC-AGGCACATCAAAACCCAGGTGTTGAAATGCTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22189793 220 +  46275980 TCATGTTATGTCATTAACTATTCACAAAGCTG-------ATTAAAATCAACTGATTCTAAAACAGATTTACAGCT-ATATGAGTCACTTATTTTTAATCTAGAAAACATAAATATATGCCCTCCAGAAGACACGGTAGTTTATTGACACAAAGAAATGCCACTGGGATCTTT-AAAGTGTATGCAGATCT-AAATCC-AGGCACATCAAAACCCAGGTGTTGAAATGCTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8172344 220 -  13858734 TCATGTTATGTTATTAACTATTCACAAAGATG-------ATTAAAATAAACTGATTCTAAAACAGATTTACAGCT-ATATGAGTCACTTATTTTTAATCTAGAAAACATAAATATATGCCCTCCAGAAGACACGGTAGTTTATTGACACAAAGAAATGCCAGTGGGATCTTT-AAAGTGTATGCAGATCT-AAATCC-AGGCACATCGAAACGCAGGTGTTGAAATGCTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9218402 220 +  32716333 TCATGTTATGTCATTAACTATTCACAAAGCTG-------ATTAAAATAAACTGATTCAAAAACAGATTTACAGCT-ATAGGACTCACTTATTTTTAATCTAGAAAACATAAATATATGCACTCCAGAAGACACGGTATTTTATTGACACAAAGAAATGCCAGTGGGATCTTG-AAAGTGTATGCAAATCT-AAATCC-AAGCACATCAAAACCCAGGTGTTGAAATGCTAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166319 221 -  13750039 TCATGTTATGTCATTAACTATTCACGAAGCTG-------ATTAAAATAAACTGATGCAGATACAGATTTACGGCT-TTATGATTCACTTATTTTTAATCTAGAAAACATAAATATATGCATTCCAGAAGACACGGTAGTTTATTGACACAAAGAAATTCCAATGGGATCTTG-AAAGTGTATGCAAATTT-AAATCCAAGGCACATCAAAACTCAGGTGTTGAAATGCTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441102 221 +  50472720 TCATGTTATGTTATTAACTACTCACATGGCTG-------ACTAAAATAAACTGATGGAAATACAGATTTAAAGCT-ATACAACTCACTTATTTGTAATCTAGAAAACATCAATATGTGCTCTCCAGAAAACACGATAGTTTATTGACACAAGGAAATTCCAGTGGGATCTTG-AAAATGTGTGCAAATGT-AAATCCAAGGCACATCAAAACCCAGGTGTTGAAATGCTGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8645685 221 +  13128814 TCGTGTTATGTTATTAACTACTCACATGGCTG-------ATTAAAATAAACTGATTGAAATACAGATTTAAAGCT-ATATGACTCATTTATTTGTAATCCAGAAAAGATAAATATATGCTCTCCAGAAAACATGATAGTTTATTGACACAAGGAAATTCCAGTGGGATCTTG-AAAGTGTATGCAAATGC-AAATCCAAGGCACATCAAAACCTAGGTGTTGAAATGTTGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13867699 221 -  14377064 CCATGTTATGTTATTAACTACTCACATGGCTG-------ATTAAAATAAACTGATTGAAATACAGATTTAAAGCT-ATACAACTCACTTATTTGTAATCTAGAAAACATAAATATATGCTCTCCAGAAAACACGATAGTTTATTGACACATAGAAATTCCAGTGGGATCTTG-AAAATGTATGCAAATAT-AAATCCAATGCACATCAAAACTCAGGTGTTGAAATGCTGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106245 222 -   9889416 tcatgttatgttatTAACTACTCACATGGCTG-------ATTAAAAGAAACTGATTGAAATACAGATTTAAAGCT-ATACAACTCACTTATTTGTAATCTAGAAAACATAAATGTATGCTCTCCAGAAAACACGATAGTTTATTGACACAAGGAAATTCCAGTGGGATCTTG-AAAATATATGCAAATGTAAAATCCAAGGCACATCAAAACCCAGGTGTTGAAATGCTGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24817585 202 -  38779656 TCACACCACGTCATTAAATACTCACAGAGCTG-------ATTGGAATAAGCTAACTCAAAGACAGAAGCATAGCT-ATATGAT-------------------ACAACATAAAGATATGCAATCAAGGAAGTGC-ACAGTTTACTCACACATAGAAATTCTTATGGTGTCTTGAAAAATATAAGCAAACCC-AAATCCAAAGTTCATCAAAATGTAGGTGTTGAGAAGCTGT
i otoGar3.GL873528          I 711 I 12
s canFam3.chr31              17992363 192 +  39895921 CCATGTTATGCTGTTAAATAT----AAAGCTGTAATTCTTTTTGAATTAACTTATTTTGAT---------CAGCT----------------TTTTTATCTAGAAACTATAAATATAGGAACTCTAGGAAGCA--AAAGATTATACACAATAAGAAGTTCAAGTAGGTTCTTG-AAAGTATGGG------T-GAATCCAAGGTACACCAAATCCAAGGGGCTGAGATGCTGT
i canFam3.chr31             C 0 I 302
s dasNov3.JH578070            2281247 199 +   3081153 CCATGTCATATAGTGAATTACCAAAAATGCTG-------ATCAGAATAAGCAAATTTTAAAAT---------GCTAACATGACTCACTT-TTTAAAATCTAGAAACTATAAATATATGTGCTCCAGAAAGCACAATTGTTTATACATGCTAAGAAGTTCAAATGAGATCTTGAAAAATGTAGACAAATCC-A------------TTCAATAAAGATGTGCTTGAGTGAT--
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=309583.000000
s hg38.chr21_GL383579v2_alt     32108  86 +    201197 GATTCCTGGT-------------GCCCCACCTCAAGGCCAGTGGCTGAATTT--------------TGATGTGGAGAAGGTATTAACTAAAATCGAGTGGACATGT-AGAAAGC
s panTro5.chr21               8654495  86 +  33445071 GATTCCTGGT-------------GCTCCACCTCAAGGCCAGTGGCTGAATTG--------------TGATGTGGAGAAGGTATTAACTAAAATCGAGTGGACATGT-AGAAAGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190013  86 +  46275980 GATTCCTGGT-------------GCTCCACCTCAAGGCCAGTGGCTGAATTG--------------TGATGTGGAGAAGGTATTAACTAAAATCGAGTGGACATGT-AGAAAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8172564  85 -  13858734 GATTCCTGGT-------------GCTCCACCTCAAGGCCAGTGGCTGAATTT--------------TGATGTGGAGAAGGTATTAACTAAAAT-GAGTGGACATGT-AGAAAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9218622  86 +  32716333 GATTCCTGGT-------------GCTCCAACTCAAGGCGAGTGGCTGAGTTT--------------TGATGTGGAGAAGGTATTAACTAAAGTCGCGTGGACATGT-AGAAAGC
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166540  86 -  13750039 GATTCCTGCT-------------GCTTCACCTCAAGGCGAGTGGCTGAGTTT--------------TGATGTGGAGAAGGCATTAACTAAAGTTGAGTAGACATGT-AGAAAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441323  86 +  50472720 GATTTGTGGT-------------GTTTTACCTCATGGCCACTGGATGAGTTT--------------TGATGTGAAGAAGATAATGACCAAAGTTGAGTCAACATGT-AGAAAGC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8645906  86 +  13128814 GATTCGTGAT-------------GTTCTACCTCATGGCCACTGGATGAGTTT--------------TGATGTGAAGAAGATAATGACCGAAGTTGAATGGACATGT-AGAAAGC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13867920  86 -  14377064 GATTCGTGGT-------------GTTCTACCTCATGGCCGCTGGAAGAGTTT--------------TGATGTGGAGAAGATAGTGACCAAAGTTGAGTGGACACGT-AGAAAGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106467  86 -   9889416 GATTCGTGGT-------------GTTCTACCTCATGGCCACTGGATGAATTT--------------TGATGTGGAGAAGATAATGACCAAAGTTGAGTGGACATGT-AGAAAGC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24817799 100 -  38779656 AATTCCTCAT-------------GCTCCACCTCCTGGCCACTAGCTGATattaattaattatttaatcaattattcaatccattaatt-aattaGAGTGGACATGTAAGAAAGC
i otoGar3.GL873528          I 12 C 0
s dasNov3.JH578070            2281446  95 +   3081153 GTTTGCTTTTTAAAAGATCATAAACTCCATTTATTGGCCACTAGATGAACCC--------------TGATG----GGAGAGATTGGTTAGATTCAGGTGGAGATGC-AGAAAGC
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e canFam3.chr31              17992555 302 +  39895921 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=87564.000000
s hg38.chr21_GL383579v2_alt     32194 14 +    201197 ATTAATTTGAATTT
s panTro5.chr21               8654581 14 +  33445071 ATTAATTTGAATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190099 14 +  46275980 ATTAATTTGAATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8172649 14 -  13858734 ATTAATTTGAATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9218708 14 +  32716333 ATTAATTTGAATTT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166626 14 -  13750039 ATTAATTTGAATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441409 14 +  50472720 GTTAATTTGAATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8645992 14 +  13128814 GTTAATTTGAATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868006 14 -  14377064 GTTAATTTGAATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106553 14 -   9889416 GTTAATTTGAATTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24817899 14 -  38779656 ATTAATTTAAATTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17992857 14 +  39895921 attaaattgaattt
i canFam3.chr31             I 302 I 122
s dasNov3.JH578070            2281541 14 +   3081153 ATTAGTTTGAATTA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=1710926.000000
s hg38.chr21_GL383579v2_alt     32208 379 +    201197 GGGATGATGCAT-GGAGCCAGGAGGCAAACAAAA-----GGAAGAATTTACCTTCCAGAATCTCTAGACTGGCACAACACTTACCAAGAAATCACATGATTGATTTTGTCCTGTTCT-TTTAGCACAGTGAAGGGTAGGGTCCC--------------------CAGCACCCAGAAGTAGCTTCCCACTCCTTATCCACGAATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCCTAAAGGTCTATTCTAAACAGTATG-----TTTTTTTTCCAAGTCAAATGATCAGAATATTTCTTCATGCAT------------TCTAAGCA----------CATCTAGCCAGCAATTATGC---------CAGACACCATGGGAATTTTGTAGTTTGGGCATTCTCATCAAACTTGTAAGCAGTGACACAGCCAAC--AGA
s panTro5.chr21               8654595 379 +  33445071 GGGATGATGCAT-GGAGCCAGGAGGCAAACAAAA-----GGAAGAATTTACCTTCCAGAATCTCTAGACTGGCACAACACTTACCAAGAAATCACATGATTGATTTTGTCCTGTTCT-TTTAGCACAGTGAAGGGTAGTGTCCC--------------------CAGCACCCAGAAGTGGCTTCCCACTCCTTATCCACGAATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCCTAAAGGTCTATTCTAAACACTATG-----TCTTTTTTCCAAGTCAAATGATCAGAATATTTCTTCATGCAT------------TCTAAGCG----------CATCTAGCCAGCAATTATGC---------CAGACACCATGGGAATTTTGTAGTTTGGGCATTCTCATCAAACTTGTAAGCAGTGACACAGCCAAC--AGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190113 378 +  46275980 GGGATGATGCAT-GGAGCCAGGAGGCAAATAAAA-----GGAAGAATTTACCTTCCAGAATCTCTAGACTGGCACAACACTTACCAAGAAATCACATGATTGATTTTGTCCTGTTCT-TTTAGCACAGTGAAGGGTAGTGTCCC--------------------CAGCACCCAGAAGTGGCTTCCCACTCCTTATCCACGAATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCCTAAAGGTCTATTCTAAACACTATG-----T-TTTTTTCCAAGTCAAATGATCAGAATATTTCTTCATGCAT------------TCTAAGCG----------CATCTAGCCAGCAATTATGC---------CAGACACCATGGGAATTTTGTAGTTTGGGCATTCTCATCAAACTTGTAAGCAGTGACACAGCCAAC--AGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8172663 379 -  13858734 GGGATGATGCAT-GGAGCCAGGAGGCAAACAAAA-----GGAAGAATTTACCTTCCAGAATCTCTAGACTGGCACAACACTTACCAAGAAATCACATGATTGATTTTGTCCTGTTCT-TTTAGCACAGTGAAGGGTAGTGTCCC--------------------CAGCACCCAGAAGTGGCTTCCCACTCCTTATCCACGGATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCCTAAAGGTCTATTCTAAACAGTATG-----TTTTTTTTCCAAGTCAAATGATCAGAATATTTCTTCATGCAT------------TCTAAGCG----------CATCTAGCCAGCAATTATGC---------CAGACACCAAGGGAATTTTGTAGTTTGGGCATTCTCATCAAACTTGTAAGCAGTGACACAGCCAAC--AGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9218722 400 +  32716333 GGGATGATGCAT-GGAGCCAGGAGGCAAAGAAAA-----GGAAGAATTTACCTTCCAGAATCTCTAGACTGGCACAACACCTACCAAGAAATCACATGATTGATTTTGTCCTGTTCTATTTAGCATAGTGAAGGGTAGTGTCCCCAGCACCTGCAATAATGATGCAGCACCCAGAAGTGGCTTCCCACTCCTTATCCACGAATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCCTAAAGGTCTATTCTAAACAGTATG-----TTTTTTTCCCAAGTCAAAGGATCAGAATATTTCCTTATGCAT------------TCTAAGCG----------CATCTAGCCAGCAATTATGC---------CAGACACCACGGGAGTTTTGTAGTTTAGGCATTCTCATCAAACTTGTAAGCAGTGACACAGCCAAC--AGA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5166640 405 -  13750039 GGGGTGATGCAT-GGAGCCAGGAGGCAA--AAAT-----GGAAGAATTTACCTTCCAGAATCTCTAGACTGGTACAACACTTACCAAGAAATCACATGACTGATTTTGTCCTGTTCTATTTAGCACAGTGAAGGGTAGTGTCCTCAGCACCTGCAATGATGATGCAGCACCCAGAAGCGGCTTCCCACTCCTGATCCACGAATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCCTAAAGATCTATTCTAAACAGTATGCTTTTTTTTTTTTCTAAATCAAAAGATCAGAATATTTCTTCATGCAT------------TCTAAGCT----------CATTTAGCCAGGAATTATGC---------CAGACACCACGGGAGTTTTGTAGTATGGGCATTCTCATCAAACTTGTAAGCAGTGATACAGCCAACAGAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441423 395 +  50472720 GAGGTGATGCAT-GGAACCAGGAGACAA--AAAA-----GGAAGAATTTACCTTCCAGAATTTCTAGACAGGCACAATACTTACCAAGAAATCACATGATTGATTTTGTCCAGGTCCATTTAGCACAGTGAAGGGTAGTGTCCCCAGCACCAGCAATAATGGTGCAGTACCTAGAAGTGGCTTCTCACTCATTATTCCCAAAAACTCTGGTGCC-TGTCAATGGCTTCTAATTCAAACATCCCTATAGGTCTATTATAAACAGTATG-------TTTATTCCAATCCAAAGCATGAGACTATTTCTTCATGAAT------------TCTAAGTG----------CAACTATCCAGCAATTATGC---------CAGAGACCACAGGACTTTTGTAGTTTGGGCATTCTCATCAAACTTGTAAGCAGTGACAAAGCCAAC--AGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8646006 401 +  13128814 GAGGTGAGGCAT-GGAACCAGGAGACAA--AAAAAATAGGAAAAAATTTACCTTTCAGAATTTCTAGACAGGCACAACACTTACCAAGAAATCACATGATTGATTTTGTCCAGATCCATTTAGCACAGTGAAGGGTAGTGTCTCCAGGACCAGCAATAATGATGCACTACCCAGAAGTGGCTTATCACTCATTATTCACAAATACTCTGGTTCCTTGTCAATGGCTTCTAATTCAAACATCCCTATAGGTCTATAATGAACAGTATG-------TTTATTCCAATTCAAAGCATGAGAATATTTCTTCATGAAT------------TCTAAGCG----------CAACTATCCAGCAATTATGC---------CAGAGACCACAGGACTTTTGTAGTTTGGGCATTTTCATCAAACTTGTAAGCAGCGACAAAGCCAAC--AGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868020 381 -  14377064 GAGGTGATGCAT-GGAACCAGGAGACAA--AAAA-----GGAAGAATTTACCTTCCAGAATTTCTAGACAGGTACAACACTTACCAAGAAATCACATGATTGATTTTGTCCAGGTCCATTTAGCACAGTGAAGGGT---------------AGCAATAATGATGCAATACCCAGAAGTGGCTTCTCACTCATTATTCACAAATACTCTGGTTCCTTGTCAATGGCTTCTAATTCAAACATCCCTCTAGGTCTATTATAAACAGTATG-------TTTATTCCAATCCAAAGCATGAGAATATTTCTTCATGAAT------------TCTAAGTG----------CAACTATCCAGCAATTATGC---------CAGAGACCAGAGGACTTTTGTAGTTTGGGCATTCTCATCAAACTGGTAAGCAGTGACAAAGCCAAC--AGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106567 397 -   9889416 GAGGTGATGCAA-GGAACCAGGAGACAA--AAAA-----GGAAGAATTTACCTTCCAGAATTTCTAGACAGGCACAACACTTACCAAGAAATCACATGATTGATTTTGTCCAGATCCATTTAGCACAGTGAAGGGTAGTGTCCCCAGCACCAGCAATAATGGTGCAGTACCCAGAAGTGGCTTCTCACTCATTATTCACAAATACTCTGGTTCCCTGTCAATGGCTTCTAATTCAAACATCCTTATAGGTCTATTATAAAAAATATG-------TTTATTCCAATCCAAAGAATGAGAATATTTCTTTATGAAT------------TCTAAGCG---------CCAACTATCCAGCAATTACGC---------CAGAGGCCACAGAACTTTTGTAGTTTGGGTATTCTCATCAAACTTGTAAGCAGTGACAAAGCCAAC--AGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24817913 402 -  38779656 GGGTTGATGCACAGGAACCAAGAGACAA--GAAA-----GGAAAAATTTGCTTTCCAGAA--TCTAGACTGACACCACCCTTAGTAATCAATCCTATGATTGATTTTTT--GGTTCCACTTTGTACAGAAAACACCAGTGACTCTAGTACCTGTGATAATGATGCAGT-------------TTCCTCCGCCTTATCCATGAGTGGTCTGGCTCCTTCCCAGTGGTTTCTAATTTAAATATCTCTGCAGGTCCATTCCATACAGTATG-----C-TTTTTTCCAAGTCGTGGGGTCAGGATACTTCCAGCTGCTCTCGGGACCTCTGTCTAAGCC----------CACCTAGTCAGCAATGATGCTGGAGACCACAGAGACCACAGGAGTTTGATGGTTTGGGCATTCTCATCAAACCTGTAAGCAGTGACAAAGTCAAG--AGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17992993 395 +  39895921 GAGATGATGCACAGGAACTAGGAGGCAA--GAAA-----GGAA-AATTTACCTTCCAAGATCTCTAGACTGACACCACTCCTAC-----ACCTCCATGA-----TTTGTTGCAATCCATTTTGCACAACAAATGATAGTGTCTCTACTATCTGAGACAGTGATGCAGCACCAGGAAGTGCCTTTCCCCACCTTATCCACAAGTGCTTGGGTTCC-TGGAGATGGCTTCCAATTCAAATATACCCATAGGTCCATTCCATACAGTCTC-------TTTTGTCAAGACTGTAGCATCAGAATATTGCTTACTGCTT------------TCAGGACCTCTGTCTCTCCCTCTAGCCAGAAATTATGC---------CAGAGAACACAAGAGTTTGATGTTTTTGGCCTTCTCATCAAACCTGTAAGCAGTTATGAAATCTAC--AAA
i canFam3.chr31             I 122 I 10
s dasNov3.JH578070            2281555 386 +   3081153 AGGATGATGCACAAGACTCAGTATGGAA-----------AGAAGAATTTACCTTCCAGAATGCCTAGATTGGCAGTGCCTTTAAC----ACCTGCAGGATTGATTTTTTCCCATTCCATTTGACACAGAAAATGACGGAGTCTT-ACTACCTATTATGGTCATGGAAATCATGCAAATGGCTTTCCCCACATCTTCTAAAAGTTCTCTGCTTCGCTGGCAATAGCTCCCAATTCAAA-ACCACCAAATGTCAATTCCACACAATCTG-------CTTTGCTCAGGCCGCAGCATCAACATCATTCTTGCTATTTCCAGGATCTCTCTTTTAGCC----------CATTCAGCCAA-ACTTAGGC---------CAGAGATCATGGCAGCTT---------GGCATTCTCATCAAACTTGTAATCAACAA-ACAATGTGC--A--
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=44693.000000
s hg38.chr21_GL383579v2_alt     32587 8 +    201197 CTTCTCAT
s panTro5.chr21               8654974 8 +  33445071 CTTCTCAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190491 8 +  46275980 CTTCTCAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173042 8 -  13858734 CTTCTCAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219122 8 +  32716333 CTTCTCAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167045 8 -  13750039 CTTCTCAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441818 8 +  50472720 CTTCTCAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8646407 8 +  13128814 CTTCTCAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868401 8 -  14377064 CTTCTCAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106964 8 -   9889416 CTTCTCAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24818315 8 -  38779656 CTTCTTAC
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2281941 8 +   3081153 CTTCACAT
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254 1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e canFam3.chr31              17993388 10 +  39895921 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=19700.000000
s hg38.chr21_GL383579v2_alt     32595 4 +    201197 CACt
s panTro5.chr21               8654982 4 +  33445071 CACt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190499 4 +  46275980 CACt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173050 4 -  13858734 CACt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219130 4 +  32716333 CACt
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167053 4 -  13750039 CACt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441826 4 +  50472720 CACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8646415 4 +  13128814 CACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868409 4 -  14377064 CACt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106972 4 -   9889416 CACT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2281949 4 +   3081153 CATT
i dasNov3.JH578070          C 0 I 38
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254 1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e canFam3.chr31              17993388 10 +  39895921 I
e otoGar3.GL873528           24818323 0 -  38779656 C
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=1489063.000000
s hg38.chr21_GL383579v2_alt     32599 453 +    201197 gtgatggttaatactgagtgtcaacttgattgcattgaaggatgcaaagtattgttcctgggtataattgtgagggtgttgccaaaggagattaaatttgagtcagcagactgggaaaggaaacccaccctcaatctgggtggccacaatctaattagctgccagcgcagccagaataaaagcaggcagaagaacctgaaaagactagactggcttagcctcccaggctacatctttctcccgtgttggatg--------------------tttcctgctctcgaacatcacactccaagttcttcagctttgggactcagaatggcttccttgattctcagcttgcagacagcctattgtgggacctcaccttgtgattgtgttgagttaatactccttaataaattcccctttatacatatacatttatcctattaattctg-ccctctagagaatcctgactaatacaAT
s panTro5.chr21               8654986 445 +  33445071 gtgatggttaatactgagtgtcaacttgattgcattgaaggatgcaaagtattgttcctgggtataactgtgagggtgttgccaaaggagattaaatttgagtcagcagactgggaaaggaaacccaccctcaatctgggtggccacaatctaattagctgccagcgcagccagaataaaagcaggcagaagaacctgaaaagactagactggcttagc--------ctacatctttctcccgtgttggatg--------------------tttcctgctctcgaacatcacactccaagttcttcagctttgggactcagaatggcttccttgattctcagcttacagacagcctattgtgggacctcaccttgtgattgtgttgagttaatactccttaataaattcctctttatacatatacatctatcctattaattctg-ccctctagagaatcctgactaatacaAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190503 445 +  46275980 gtgatggttaatactgagtgtcaacttgattgcattgaaggatgcaaagtattgttcctgggtataactgtgagggttttgccaaaggagattaaatttgagtcagcagactgggaaaggaaacccaccctcaatctgggtggccacaatctaattagctgccagcgcagccagaataaaagcaggcagaagaacctgagaagactagactggcttagc--------ctacatctttctcccgtgttggatg--------------------tttcctgctctcgaacatcacactccaagttcttcagctttgggactcagaatggcttccttgattctcagcttgcagacagcctattgtgggacctcaccttgtgattgtgttgagttaatactccttaataaattcccctttatacatatacatctatcctattaattctg-ccctctagagaatcctgactaatacaAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173054 452 -  13858734 gtgatggttaatactgagtgtcaacttgattgcactgaaggatgcaaagcattgttcctgggtataactgtgagggtgttgccaaaggagattaaatttgagtcagcagactgggaaaggaaacccaccctcaatctggctggccacaatctaattagctgccagcgcagccagaataaaagcaggcagaagaacctgaaaagactagactggcttagcctcccagcctacatctttctcccgtgttggatg--------------------tttcctgccctcgaacatcacactccaagttcttcagctttgggactcagaatggcttccttgattctcagcttgcagacagcctattgtgggacctcaccttgtgattgtgttgagttaa-actccttaataaattcccctttatacatatacatctatcctattaattctg-ccctctagagaatcctgactaatacaAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219134 451 +  32716333 gtgatggttaatactgagtgtcaacttgattgcattgaaggatgcgaagtattgttcctggatataactgtgagggtgttgccaaaggagattaaatttgagtcagtggactgggaaaggaaacccatcctcaatctgggtggccacaatctaatcagctgccagcgcagccagaataaaagcaggcagaagaacctgaaaatactagactggcttagcctcccagcctacatctttctcccgtgttggatg--------------------tttcctgccctcgaacatcacactccaagttcttcagctttgggactcagaatggcttccttgattttcagcttgcagacagcctattgtgggatatcaccctgtgattatg-tgagttaatactccttaataaattcccctttat--atatacatctatcctattaattctgtccctctagagaatcctgactgatataAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167057 451 -  13750039 gtgatggttaatactgagtgtcaatttgattggattgaaggatgcaaagtattgttccctggtatatctgtgagggtgttgccaaaggagattaaatttgagtcagcagactgggaatggaaatccaccctcaatctgggtgggcacagtctaatcagctgccaatgcagccagaatacaagcaggcagaagaacctgaaaagactagactggcttagcctcccagtctacatctttcttccgtgttggatg--------------------tttcctgtcctcgaacatcacactccaagttctgcagctttgggactcagaatggcttccttgattctcagcttgcagacagcctattgtgggacctcaccttgtgattgt-ttgagttaacactccttaataaattcccttttat--atacgcatgtgtcctattaattctgtccctttagagaaccctgactaatacaAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26441830 458 +  50472720 G-gacggttaatactgag-------gtgattagattgaaggatgcaaagtattgtccctgggtatgtctgtaagggtgttgccaaaggagattaaatttgaatcagcggactgggaaaggaaaccctccctcaatctgggcgggcacaatctcatcagctatcagtgcagccagaataaaagcaggcagaagaacatgaaaacgctaggctggctttgcctccaagcctacatctgtcgcctgtgctggatgcttcctccctcaaagttcttcttcct-ccctcaaagttcacactccaagttcttcagctttgggactcagactggtttccatgcttctcagcttgcagatggcccattgtgggacctcatcctgtgatcctg-tgagttaatactccttaataaactccgcttcac--gtacacatctatcctaataattctgtacctctagagaact----ctaatacaAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8646419 462 +  13128814 G-gatggttaatactgagcatcagcttgattggatcgaaggatacaaagtattgtccctgggtatgtctgtgagggcgttgccaaaggagattaaatttgagtcagtggactggg-aaggaaaccttccctcaatctggatgggcacaatcgaatcagctgtcagtgcagccagaataaaag-aggcagaagaacatgaaacggctagactggcttagcctccaagcctacatctgtctcctgtgctggatgcttcctccctcaaagttcttcttcct-ccctcaaagttcacact-caaattcttcagctttgggactcagactggcttccatgcttctcagcttgcagatggcccattgcgggacgtcatcctgtgatcctg-tgagttaatacttcttaataaactccactttgt--atatacatctatcctaataattctgtacctctagagaact----ctaatacaAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868413 440 -  14377064 -----ggttaatactgagtgtcaacttgattggattgaaggatgcaaagtattgtccctgggtatgtctgtgagggtgttgccaaaggagattaaatttgagtcagtagactgggaaaggaaaccctccctcaatctgggcggccacagtctaatcagctgtcagtgcagccagaataaaagcaggcagaagaacatgaaaaggctagactggcttcgcctccaagactacatctgtctcctgtgctggatg--------------------cttcct-ccctcaaagttcacactccaagttcttcagctttgggactcagactggcttccatgcttctcagcttgcagatggccca-tgtgggacctcatcctgtaatcatg-tgagttaatactccttaataaactccacttgat--atacacatctatcctaataattctgtacctctagagaact----ctaatacaAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9106976 464 -   9889416 G-gatggttaatactgagtgtcaacttgattggattgaaggatgcaaagtattgttcctgggtgtgtctgtgagggtcttgccaaagtagattaaatctgagtcagtggacggggaaaggaaacactccctcaatctgggtgggcacaatctaatcaactgtcagtgcagccaggataaaagcaggcagaagaacatgaaaaggctagactggcttcgactccaagcctacatctgtctcctgtgctggatgcttcctccctcaaagttctttttcct-ccctcaaagttcacattccaagttcttcaactttgggactcagactggctgccatgcttctcaacttgcagatggcccattgtgggacctcatcctgtgatcctg-tgagttaatactccttaataaactcc-ctttat--atacacatttatcctaataattctgtacctctagagaact----ctaatacaAT
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2281953  38 +   3081153 I
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e canFam3.chr31              17993388  10 +  39895921 I
e otoGar3.GL873528           24818323   0 -  38779656 C
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=30205.000000
s hg38.chr21_GL383579v2_alt     33052 7 +    201197 CACCTTC
s panTro5.chr21               8655431 7 +  33445071 CACCTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190948 7 +  46275980 CACCTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173506 7 -  13858734 CACCTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219585 7 +  32716333 CACCTTC
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167508 7 -  13750039 TACCTTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26442288 7 +  50472720 CACCTTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8646881 7 +  13128814 CACCTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868853 7 -  14377064 CACCTGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9107440 7 -   9889416 CACCTTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24818323 7 -  38779656 CATCATC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2281953 38 +   3081153 I
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254 1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e canFam3.chr31              17993388 10 +  39895921 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=577122.000000
s hg38.chr21_GL383579v2_alt     33059 143 +    201197 ATCATTGTCTCATTTCTGGACTTCAGCTTCTTTTTTTTATCAAAACATGGGAGTTCAAATCTCTATG-TCATTGAAGATATTAAGGAAGGTAAAACTATTCTGCCC-CAATAGTTAGGCCATTGCCTTCACCAACAGATTGACAA
s panTro5.chr21               8655438 143 +  33445071 ATCATTGTCTCATTTCTGGACTTCAGCTTCTTTTTTTTATCAAAACATGGGAGTTCAAATCTCTATG-TCATTGAAGTTATTAAGGAAGGTAAAACTATTCTGCCC-CAATAGTTAGGCCATTGCCTTCACCAACAGATTAACAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22190955 142 +  46275980 ATCATTGTCTCATTTCTGGACTTCAGCTTC-TTTTTTTATCAAAACATGGGAGTTCAAATCTCTATG-TCATTGAAGTTATTAAGGAAGGTAAAACTATTCTGCCC-CAATAGTTAGGCCATTGCCTTCACCAACAGATTAACAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173513 142 -  13858734 ATCATTGTCTCATTTCTGGACTTCAGCTTC-TTTTTTTATCAAAACATGGGAGTTCAAATCTCTATA-TCATTGAAGATATTAAGGAAGGTAAAACTATTCTGCCT-CAATAGTTAGGCCATTGCCTTCACCAACAGATTGACAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219592 142 +  32716333 AACATTTTCTCATTTCTGGACTTCAGCTTC-TTTTTTTATCAAAACATGGAAGTTCAAATCTCTATG-TCATTGAAGATATTAAGGAAGGTAAAACCATTCTGCCC-CAATAGTTAGGCCATTGCCTTCACCAACAGATTGACAA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167515 142 -  13750039 ATCATTTTCTCATTTCTGGACTTCAGCTTC-CTTTTTAATCAAAACATGGAAGTTCAAATCTCTATG-TCATTGAAGATATTAAGGAAGGTAAAACCATTCCGCCC-CAGTAGTTAGGCCATTGCCTTCACCAACAGATTGACAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26442295 140 +  50472720 ATCATTTTCTCATTTCTGGAGTTTAGCTTC--TTTTATATCAAAACATGGAAGTTCAAATCTCTATA-TCACTGAAGATATTAAGGAAGAT-AAACCATTCTGCCC-CAGTAGTTAGGTCATTGTCTTCATCATCAGATTGACAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8646888 121 +  13128814 ATCATTTTCTCTTTTCTGGAGTTTAGCTTC--TTTTGTATCAAAACATGGAAGTTCAAATCTTGATA-TCACTGAAGATATTAAGGAAGATAAAACCATTCTGC---------------------CTTCACCATCAGATTGACAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13868860 141 -  14377064 ATCATTTTCTCATTTCTGATGTTTAGCTTC--TTTTATATCAAAACATGGAAGTTCAAATCTCTATA-TCACTGAAGATATTAAGGAAGATAAAACCATTGTGCCC-CAGTAGTTAGGTCACTGCCTTCACCATCAGATTGACAA
i cebCap1.NW_016107322v1    C 0 I 116
s aotNan1.NW_018487195v1      9107447 141 -   9889416 ATCATTTTCTCATTTCTGGAGTTTAGCTTC--TTTTATATCAAAACATGGAAGTTCAAATCTCTGTA-TCACTGAAGATATTAAGGAAGATAAAACCATTCTGCTG-CAGTAGTTAGGTCATTGCCTTCACCATCAGATTGACAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24818330 142 -  38779656 ATCATCTTCCTGTTTCTAAACTCTATCTCC--ATATTCCTCTAGATGTGGAGGTTCAGATCTCCTTGTTTTTTGAACATCTTAAGGAAGGTAAACACATTCTATGC-TTACAGTCATGGCATTGCCTTCACCATTATATTAATGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17993398 142 +  39895921 ATAATTTTATCATTTCTAGACTTTTTCTCC--CTCTTCGTATAAACATGGAAATATAAACTTCTATG-TTGTTAGACATTCAAAGGAAGATAAGCCCATTCTATCCACAGGAGTCATTTTATTAACCTTACCATCACATTAACAA
i canFam3.chr31             I 10 C 0
e dasNov3.JH578070            2281953  38 +   3081153 I
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=9195.000000
s hg38.chr21_GL383579v2_alt     33202 2 +    201197 TC
s panTro5.chr21               8655581 2 +  33445071 TC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22191097 2 +  46275980 TC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173655 2 -  13858734 TC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219734 2 +  32716333 TC
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167657 2 -  13750039 TC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26442435 2 +  50472720 TC
i calJac3.chr21             C 0 I 71
s saiBol1.JH378168            8647009 2 +  13128814 TC
i saiBol1.JH378168          C 0 I 60
s aotNan1.NW_018487195v1      9107588 2 -   9889416 TC
i aotNan1.NW_018487195v1    C 0 I 114
s otoGar3.GL873528           24818472 2 -  38779656 TT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17993540 2 +  39895921 TC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2281953 38 +   3081153 I
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254 1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e cebCap1.NW_016107322v1     13869001 116 -  14377064 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=29859.000000
s hg38.chr21_GL383579v2_alt     33204 17 +    201197 AGCTGGC-------------------------TCTTGTCAGC---
s panTro5.chr21               8655583 17 +  33445071 AGCTGGC-------------------------TCCTGTCAGA---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22191099 17 +  46275980 AGCTGGC-------------------------TCCTGTCAGA---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173657 17 -  13858734 AGCTGGC-------------------------TCCTGTCTGA---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219736 17 +  32716333 AGCTGGC-------------------------TCCTGTCAGA---
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167659 17 -  13750039 AGCTGGC-------------------------TCCTGTCAGA---
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26442508 42 +  50472720 AACTGGCACAACAGCAGTTTAAAATAAACAATTCCTGTCTAG---
i calJac3.chr21             I 71 I 1
s saiBol1.JH378168            8647071 42 +  13128814 AACTGGCACAACAGCAGTTTTAAATAAAAAGCTCCTGTCTAG---
i saiBol1.JH378168          I 60 I 1
s otoGar3.GL873528           24818474 17 -  38779656 AGCTGGA-------------------------TCCTGTCTAG---
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              17993542 20 +  39895921 AACTGCT-------------------------TCCTGTCTACAGA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2281953 38 +   3081153 I
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e cebCap1.NW_016107322v1     13869001 116 -  14377064 I
e aotNan1.NW_018487195v1      9107590 114 -   9889416 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=1929787.000000
s hg38.chr21_GL383579v2_alt     33221 482 +    201197  
s panTro5.chr21               8655600 482 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22191116 482 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8173674 481 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9219753 490 +  32716333  
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5167676 501 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26442551 492 +  50472720  
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8647114 495 +  13128814  
i saiBol1.JH378168          I 1 I 309
s cebCap1.NW_016107322v1     13869117 491 -  14377064  
i cebCap1.NW_016107322v1    I 116 C 0
s aotNan1.NW_018487195v1      9107704 489 -   9889416  
i aotNan1.NW_018487195v1    I 114 C 0
s otoGar3.GL873528           24818492 468 -  38779656  
i otoGar3.GL873528          I 1 I 11
s canFam3.chr31              17993562 523 +  39895921  
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2281953  38 +   3081153 I
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=243049.000000
s hg38.chr21_GL383579v2_alt     33703 65 +    201197 GAAAACATTTATCTACTAGTTG----TTATCACAGTACATTAGAGGAAAGTTGAATTTTGCTTTTA--------TGT
s panTro5.chr21               8656082 65 +  33445071 GAAAACATTTATCTACTAGTTG----TTATCACAGTACATTAGAGGAAAGTTGAATTTTGCTTTTA--------TGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22191598 65 +  46275980 GAAAACATTTATCTACTAGTTG----TTATCACAGTACATTAGAGGAAAGTTGAATTTTGCTTTTA--------TGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174155 64 -  13858734 GAAAACATTTATCTACTAG-TG----TTATCACAGTACATTAGAGGAAAGTTGAATTTTGCTTTTA--------TGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220243 69 +  32716333 GAAAACATTTATCTACTAGTTGTTGATTATCACAGTACATTAGAGGAAAACTGAAATTTGCTTTTA--------TGT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168177 69 -  13750039 GAAAACATTTATCTACTAGTTGTTGATTATCACAGTACATTATAGGAAAATTGAATTTTGCTTTTA--------TGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26443043 69 +  50472720 CAAAACATTTATTTACAAGCTGCTGATTATCACAGTACATTATAGGAAAATTGAAATTTGCTTTTA--------TAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8647918 69 +  13128814 gaaaaCATTTATTTACTAGTCGCTGATTATCACAGTATATTATAGGAAAATTGAAGTTTGCTTTTA--------TGT
i saiBol1.JH378168          I 309 C 0
s cebCap1.NW_016107322v1     13869608 69 -  14377064 GAAAACATTTATTTACTAGTTGTTGATTATCACAGTACATTATAGGGAAATTGAAGTTTGCTTTTA--------TGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108193 61 -   9889416 -CAAACATTTCTTTACTAGTTGCTGATTATCACAGTACATTGTAGGAAAATTGAAG-------TTA--------TGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24818971 67 -  38779656 GTGAGCTGTTA--TACCAGTTGTTGATTATCATAGTTCAACACAGTAAAACTGAAGTTTGCTTTTG--------TTT
i otoGar3.GL873528          I 11 C 0
s canFam3.chr31              17994085 75 +  39895921 AGAAGCCTTTATCTTTGAGTT--TTATTATCTTAGTTCTTCTTAAGATAATGAATGTTTGCTATTATCAAGACCTGA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2281953 38 +   3081153 I
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=409742.000000
s hg38.chr21_GL383579v2_alt     33768 106 +    201197 TGTCCATTCTAAACTTGTTAGAAAATGACAACTAGGCATTGGAGGAAGCTCCATTATTCACCCAAGAAGACAATATGAATTTGCAGGTTCACAAAAGGGcatttac
s panTro5.chr21               8656147 106 +  33445071 TGTCCATTCTAAACTTGTTAGAAAATGACAACTAGGCATTGGAGGAAGCTCCATTATTCACCCAAGAAGACAATATGAATTTGCAGGTTCACAAAAGGGcatttac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22191663 106 +  46275980 TGTCCATTCTAAACTTGTTAGAAAATGACAACTAGGCATTGGAGGAAGCTCCATTATTCACCCAAGAAGACAATATGAATTTGCAGGTTCACAAAAGGGcatttac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174219 106 -  13858734 TGTCCATTCTAAACTTGTTAGAAAATGACAACTAGGCATTGGAGGAAGCTCCATTATTCACCCAAGAAGACAATATGAATTTGCAGGTTCACAAAAGGGcatttac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220312 106 +  32716333 TGTCCATTCTAAACTTGTTAGAAAATGACAACTAGGCATCGTAGGAAGCTCCATTATTCACCCAGGAAGACAATATAAATCTGCAGGTTCACAAAAGGGcatttac
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168246  87 -  13750039 TATCCATTCTAAACGTGTTAGAAAATGACAGCTAGGCATTTGAGGAAACTCCAT-------------------TAGGAAACTGCAGGTTCACAAAAAGGcatttac
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26443112 106 +  50472720 TGCCCACTCTAAACTTGCTGGAAAATGACAACTAGGCATTGAAGGAAGCTCCATTATTTACCCAGGAAGACAACATGATTCGGCAGCTTCACAAAAAGGcaattgc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8647987 106 +  13128814 TGCCCACTCTAAACTTGCTAGAAAATGACAGCTAGGCATTGAAGGAAGCTCCGTTATTTACCCAGGAAGACAACATGAATCTGCAGGTTCACAAAAAGGCATttgc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13869677 102 -  14377064 TGCCCACTCGAAACTTGCCAGAAAATGAC----AGGCATTGAAGGAAGCTCCATTATTTACCCAGGTAGACAACATGAATCTGCAGGTTCAAAAAAAGGcatttgc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108254 106 -   9889416 TACCCACTCTAAACTTGCTAGAAAATGACAGCTAGGCATTGAAGGAAGCTCCATTATTTACCCAGGAAGACAACATGAATTTGCAGGTTCACAAAAAGGcatttgc
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24819038 105 -  38779656 TGACCACTCTAAGCTTGTTAGAAACTGACAGGTAGGCAATGAAGGTAACACC-TGGTTTACACAGGAAAATAGCAAGAAGCTTGAGGCTCACAGAAAGGTATGTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17994160  48 +  39895921 TATCCACTCCAAACTTGCTTGCAAGATACAGGGATGCATC----------------------------------------TTGCTGat------------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2281991  83 +   3081153 TGTCCACTATCAGCTTGTTAGAAAGAGGCAATTA---------GAAAATTCAGTTAT--------------ATCAGGAAGTTCCAAGCTCAAACAAAGGCATCTAC
i dasNov3.JH578070          I 38 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=862808.000000
s hg38.chr21_GL383579v2_alt     33874 300 +    201197 cctgagttgattattctacattgtatacatgtatgaaaatatcacaggtactgcaatgtaacctaaaattatgtgcaactgtgatattttaataaaa-aTCTAAAAATGTCAAAATATCCATAAATATATGCAAGTCTATTATCTACATTATTATTGcttaaactattggtgataaaacattatgtttgtgtttgtaattttgtcttttatttgcattctgttatggccaaatactttt-----------------gtaaaatattagaaataat-gaattactaaaattaaaacacaaattcatataaaaAGG-CATTT
s panTro5.chr21               8656253 300 +  33445071 cctgagttgattattctacatagtatacatgtatgaaaacatcacaggtactgcaatgtaacctaaaattatgtgcaactgcgatattttaataaaa-aTCTAAAAATGTCAAAATATCCATAAATATATGCAAGTCTATTATCTACATTATTATTGcttaaactattggtgataaagcattatgcttgtgtttgtaattttgtcttttatttgcattctgttatggccaaatactttt-----------------gtaaaatattagaaataat-gaattactaaaattaaaacacaaattcatataaaaAGG-CATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22191769 300 +  46275980 cctgagttgattattctacatagtatacatgtatgaaaacatcacaggtactgcaatgtaacctaaaattatgtgcaactgcgatattttaataaaa-aTCTAAAAATGTCAAAATATCCATAAATATATGCAAGTCTATTATCTACATTATTATTGcttaaactattggtgataaagcattatgcttgtgtttgtaattttgtcttttatttgcattctgttatggccaaatactttt-----------------gtaaaatattagaaataat-gaattactaaaattaaaacacaaattcatataaaaAGG-CATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174325 300 -  13858734 cctgagttgattattctacattgtatacatgtatgaaaatatcacaggtactccaatgtaacctaaaattatgtgcaactgtgatattttaataaaa-aTCTAAAAATGTCAAAATATCCATAAATATATGCAAGTCTATTATCTACATTATTATTGcttaaactattggtgataaagcattatgtttgtgtttgtaattttgtcttttatttgcattctgttatggccaaatactttt-----------------gtaaaatattagaaataat-gaattactaaaattaaaacacaaattaatataaaaagg-catTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220418 300 +  32716333 cctgatttgattattctacattgtatacatgtatgaaaatatcacatgtactccaatgtaacctaaaattatgtgcaactgtggtattttaataaaa-aTATAAAAATGTCAAAATATCCATAAATATATGCAAGTCTATTATCTACATTATTATTGcttaaactattggtgataacgcattatgtttgtgtttgtaatttagtcttttatttgcattctgttatggccaaatactttt-----------------gtaaaatactagaaataat-gaattactaaaattaaaacacaaattcatataaaaAGG-CATTT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168333 301 -  13750039 cctgatttgattattctacattgtatacatgtatgaaaatatcacatatactccaatgtaacctaaaattatgtgcaactgtggtattttaataaaaTATACAAAAATATCAAAATATCCATAAATATATGCAAGTCTGTTATCTACATTATTATttcttaaactattggtgatcaagcattatgtttgtgtttgtaattttgctttttatttgcattctgttatggccaaatactttt-----------------gtaaaatattagaaaaaat-gaattacaaaaattaaaacacaaatccatatagaaAGG-CATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26443218 318 +  50472720 cctaacttcgtcattctacattgtatacatatatgataagatcatatgtactccaatgtaacctaaagttatatgcaacaataatattttaataaaa-aaTACAAACTGTCAAAATGTCCATAAATATACGCAAGGCTATTATCTACATTATTATTTCTTAAACTACTGGCGGTAAAGCATTATGTTTACATTAGAAATTTTGTT-TTTATTTGCATTCTGCTATGACCAAATACTGTTTTTGTAAATATTTTCTAGTAAAATACTAGAAAAAATAGAATTACTAAAATTAAAACACAAAGCCATATAAAAAAGGCATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8648093 315 +  13128814 cctaatttcatcattctacattgtatacatatatgataatatcgcctgtactccaATGCAACCTAAAGTTATATCTGACTATAATATT---AAAAAA-AATACAAACTGTCAAAATATCCATAAATATATGCTAGGCTATTATCTACATTATTTTTTCTTAAACTAACAATGGTAAAGCATTATATTTGCATCAGAAATTCTGTC-TTTATTTGCATTCTGTTATGACCAAATACTATTTTTGTAAATATTTTCTAGTAAAATACTAGAAAAAATAGATTTACTAAAATTCAAATGCAAAGCCATATGAAAAAGGCATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13869779 305 -  14377064 cctaatttcatcattctacattgtatacatatatgataatatcacatgtactccaatgtaacctaaagttatgtgcaactataatattttaataaaa-aaTACAAACTCTCAAAATATCCATAAATATATGCAAGGCTACTATCTACATTATTTTTTCTTAAAGTATCGGTGGTAAAGCATTATGTTTGCATTAGAAATTTTGTC-TTTATTTGCATTATGTTATGACCAAGTATTATTTTTGTAAATATTTTCTAGTAAAATACTAGAAAAAATAGAATTACTAAAATTAAAACACAAAGC-------------CATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108360 318 -   9889416 cctaatttcatcattctacatagtatacatatatgataatatcacatgtactccaatgtaacctaaagttacgtgcaaccataatattttagtaaaa-aaTACAAACTGTCAAAATACCCATAAATATATGCAAGGCTATTATCTACATTATTATTTCTTAAACTATCAGTGGTAAAGCATTATGTTTGCATTAGAAATTTTGTT-TTTATTTGCATTCTGTTATGACTAAATACTATTTTTGTAAATATTTTCTAGTAAAATACTAGAAAAAATAGAATTACTAAAGTTAAAACACAAAGCCATATAAAAAAGACATTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24819143 138 -  38779656 GCTGACAATATCCTGCCATTTTATATAC------------------------------------------------------------------------------------AGACGCTCCTAACTATATTTACTTCTATAATAAGTTTTTCTATGGCTACAA---------------------------------AATTTTGTTACTTATTT-------------------TGCTTTA--------------------------------TAAT-------------TTAAATAACATACTCATTTGAAATTT-TATTT
i otoGar3.GL873528          C 0 I 53
s canFam3.chr31              17994208 136 +  39895921 ----------------------gtctatatatataatattatgata----------------------ttatatataatt---------------------------------------------tatatgc--------tatatataatgt---------aatgataagtgaatatatattatgtt-------------------ttaatatata-------------gaatac-----------------------ataatacataaaaatat-catttatta--------------atttgtatataaa--------
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2282074   0 +   3081153 C
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=8190.000000
s hg38.chr21_GL383579v2_alt     34174 2 +    201197 AT
s panTro5.chr21               8656553 2 +  33445071 AT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192069 2 +  46275980 AT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174625 2 -  13858734 AT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220718 2 +  32716333 AT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168634 2 -  13750039 AT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26443536 2 +  50472720 AT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8648408 2 +  13128814 AT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13870084 2 -  14377064 AT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108678 2 -   9889416 AT
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2282074 0 +   3081153 C
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254 1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e canFam3.chr31              17994344 0 +  39895921 C
e otoGar3.GL873528           24819281 53 -  38779656 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=145449.000000
s hg38.chr21_GL383579v2_alt     34176 60 +    201197 GCTGAGAATGTCCAATCATTATTACTGTG------------------------CACACATATACAG--ACACACACGCATATGTAT
s panTro5.chr21               8656555 60 +  33445071 GCTGAGAATGTCCAATCATTATTACTGTG------------------------CACACATATACAG--ACACACATGCATATGTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192071 60 +  46275980 GCTGAGAATGTCCAATCATTATTACTGTG------------------------CACACATATACAG--ACACACATGCATATGTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174627 60 -  13858734 GCTGAGAATGTCCAATCATTATTAATGTG------------------------CACACATATACAG--ACACACACGCATATGTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220720 62 +  32716333 GCTGAGAATGTCCAATCATTATTAATGTG------------------------cacacatatacagacacacacacacaTATGTAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168636 59 -  13750039 GCTAAGAA-GCCCAATCATTATTAATATG------------------------cacacatatacag--acacacacacaAATGCAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26443538 64 +  50472720 GCTGGGAATATCTAATCATCATTAATGTG--------------------CACACACACacacacac--atatacacacacatatat
i calJac3.chr21             C 0 I 1259
s saiBol1.JH378168            8648410 84 +  13128814 GCTGAGAATATCCAATCATTGTTAATGTGcatacatatacagacacacacacacacacacacacac--acacacacacacacatac
i saiBol1.JH378168          C 0 I 2
s cebCap1.NW_016107322v1     13870086 84 -  14377064 GCTGGGAATATCCAATCACTGTTAATGTGCATACATATACAGacacacgcacacacgcacacacac--acacacacacacacGTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108680 52 -   9889416 GCTGGGAATATCCAATCATTGTTAATGTG--------------------------------CATAC--ATATACAGACACACGTAT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17994344 47 +  39895921 ------------taatacataatataata------------------------cata-atatatat--TCATTCATTTCTATATAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2282074 46 +   3081153 ACAGGTGCTGTCCAATAATTA-------------------------------------AAAAACAG--AT-TATTTTTCTATATAA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e otoGar3.GL873528           24819281 53 -  38779656 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=249834.000000
s hg38.chr21_GL383579v2_alt     34236 73 +    201197 TTCAAGTAAGCCTTTAATATGCCCATATAATTCTATTAT---TTTCT-TTTTTTAACTCAAATGGCATATTCATTTG
s panTro5.chr21               8656615 73 +  33445071 TTCAAATAAGCCTTTAATATGCCCATATAATTCTATTAT---TTTCT-TTTTTTAACTCAAATGGCATATTCATTTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192131 73 +  46275980 TTCAAATAAGCCTTTAATATGCCCATATAATTCTATTGT---TTTCT-TTTTTTAACTCAAATGGCATATTCATTTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174687 73 -  13858734 TTCAAATAAGCCTTTAATATGCCCATATAATTCTATTAT---TTTCT-TTTTCTAACTCAAATGGCATATTCATTTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220782 72 +  32716333 TTCAAATAAGCCTTTAATATGCCCATATAATTCTATTAT---TTTCT-TTTT-TAACTCAAATGGCATATTTATTTG
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168695 76 -  13750039 TTCAAATAATCCTTTAATATGCTCATATAATTCTATTATTTATTTTC-TTTTTAAACTCAAATGGCATATTCATTTG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8648496 73 +  13128814 TTCAAATAAGCCTT---TATACCCATATAATTCTATTATTTATTTTC-TTGTTGAACTCAAATGGCATATTCATTTG
i saiBol1.JH378168          I 2 C 0
s cebCap1.NW_016107322v1     13870170 77 -  14377064 TTCAAATAAGCCTTTAATATGCCCATATAATTCTATTATTTATTTTCTTTTTTTAACTCAAATGGCATATTCATTTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108732 76 -   9889416 TTCAAATAAGCCTTTAATATGCTCATATAATTCTATTGTTTATTTTC-TTTTTTAACTCAAGAGGCATATTTATTTG
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17994391 74 +  39895921 TCCAAAAAAAGGTTTTGTATGCCTATAAAATTTTGTGACT--ATTTT-CTTTTTAATTCAAGTGACATATTCATTTG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2282120 72 +   3081153 TACAAATAAGCTTTTG-TATGCTTATAAAAGTGTAATTG---CTTTC-ATTTTTAATTCAATTGGCATCTACTTTTG
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e calJac3.chr21              26443602 1259 +  50472720 I
e otoGar3.GL873528           24819281 53 -  38779656 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=956293.000000
s hg38.chr21_GL383579v2_alt     34309 262 +    201197 AAATTGTATTTCAATGATATACGATTAATGAA-GAGAAGAGATTGT---------------------------------------------------------GGATTGCCATATATCCTATCATGTCCCAGAAGGTAGTCATTTGTGACTATTTTCCTGGC--ATATTTATTA-TAATGCCAATTTTTACTCTCAGGAGAGTCACAGTTTAGATGATAAATAGATACGGTTCGTTGAAGTTAAGGTGAT-GCAACTTTCTGAAATGTAACATGGG--AG-AGGTGGGTGAGTTGGAATTGACCAGA-TTCTAGGAT----TTTCTTTTTAA
s panTro5.chr21               8656688 262 +  33445071 AAATTGTATTTCAATGATATACGATTAATGAA-GAGAAGAGATTGT---------------------------------------------------------ggattgccatatatcctatcatgtcccggaaggtagtcatttgtgactattttcctggc--ataactatta-taatgccaatttttactctcaggagagtcacagtttagatgataaatagatacggtTCGTTGAAGTTAAGGTGAT-GCAACTTTCTGAAATGTAACATGGG--AG-AGGTGGGTGAGTTGGAATTGACCAGA-TTCTAGGAT----TTTCTTTTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192204 262 +  46275980 AAATTGTATTTCAATGATATACGATTAATGAA-GAGAAGAGATTGT---------------------------------------------------------ggattgccatatatcctatcatgtcccggaaggtagtcatttgtgactattttcctggc--ataactatta-taatgccaatttttactctcaggagagtcacagtttagatgataaatagatacggtTCGTTGAAGTTAAGGTGAT-GCAACTTTCTGAAATGTAACATGGG--AG-AGGTGGGTGAGTTGGAATTGACCAGA-TTCTAGGAT----TTTCTTTTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8174760 261 -  13858734 AAATTGTATTTCGATGATATACGATTAAGGAA-GAGAAGAGATTGT---------------------------------------------------------GGATTGCCATATATactatcatgtccc-gaaggtagtcatttgtgactattttcctggc--ataattatta-taatgccaatttttactctcaggagagtcacagtttagatgataaatagatacggtTCATTGAAGTTAAGGTGAT-GCAACTTTCTGAAATGTAACATGGG--AG-AGGTGGGTGAGTTGGAATTTACCAGA-TTCTAGGAT----TTTCTTTTTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9220854 262 +  32716333 AAATTGTATTTCAATGCTATACGATTAATGAA-GAGAAGAGATTGT---------------------------------------------------------GGACTGCCATCTATCCTATCATGTCCCAGAAGGTAGTCATTTGTGACTATTTTCCTGGC--ATCATCATTA-TAACGTCAATTTTTACTCTCAGGAGAGTCACAGTTTAGATGATAAATAGATATGGTTCACTGACGTTAAGGTGAT-GCAACTTTCTGAAATGTAACATGGG--AG-AGGTGGGTGAGTTGGAATTGACCAGA-TTCTAGGAT----TTTCTTTTTAA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5168771 262 -  13750039 AAATAGTATTTTGATGCTGTATGATTAATGAA-GAGAAGAGATTGT---------------------------------------------------------GGGTTGCCATATATCCTAGCATGTCCCAGAAGGTAATCATTTATGGCTATTTTCCTGGC--ATAACTATTA-TAATGCCAATTTTTTCTCTCGGGAGAGTCACAGTTTAGATGATAAATAGATATGGTTCATTGAAGTTAAGGTGAT-GCAACTTTCTGAAATGTTACATGGG--AG-AGGTGGATGAGTTGGAATTGACCAGA-GTCTAGGAT----TTTCTTTTTAA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8648569 261 +  13128814 ACATAGTATTTCAATGCTATATGATTAATGAC-GAGAAGAGATAGT---------------------------------------------------------TGGTTGCCATATATCCTAGCCTGTCCTGGAAAGTAGTCATTTATGACTGTTTTCCAGGC--ATAATTACTA-TAATGCCAATTTTCAGTCTCAGGAGAGTCACAGTTTAGATGATAAATAGTCATGGTTCA-TGATGTTAAGATGAT-GCAATCTTCTGAAATGTAACTTTGG--AG-AGGTGGATGAGTTGGAGTTAACCAGA-TTCTAGGAC----TGTATTTTTAA
i saiBol1.JH378168          C 0 I 1850
s cebCap1.NW_016107322v1     13870247 262 -  14377064 ACATAGTATTTCAATGCTACATGATTAATGAA-GAGAAGAGATAGT---------------------------------------------------------gggttgccatatatcctaacctgtcctggaaagtagtcatttatgacgattttcctggc--ataattatta-taatgccaattttcactctcaggagagtcacaatttagatgataaatATTCATGGTTCATTGATGTTAAGGTGAT-GCAATCTTCTGAAATGTAACATGGG--AG-AGGTGGATGAGTTGGAGTTGACCAGA-TTGTAGGAC----TGTATTTTTAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9108808 262 -   9889416 ACTTAGTATTTCAATGCTATGTGATTAATGAA-GAGAAGAGATAGT---------------------------------------------------------gggttgccatatatcctagcctgtcctggaaagtagtcatttatgactattttcctggc--ataattatta-taatgccaattttcactctcaggagagtcacagtttagatgataaatATTCATGGTTCATGGATGTTAAGGTGAT-GCAATCTTCTGAAATGTAACATGGG--AG-AGGTGGATGAGTTGGAGCTGACCAGA-TTCTAGGAC----TGTATTTTTAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24819334 247 -  38779656 CAATAATATTTCTA----ATTAGATCATTGAATGAGA------------------------------------------------------------------GGGTGGCTAAACATTCCAGGATGTTCACAGTAGTTGTCATTTATGACTGTTTTCCTGAC--ATGGTTATTATTAGTGTCACTTTTTACTCTCAGAAGAGTTATAATTTAAATGCTGA--------GGGTTAAATAAGTTGGAATGAT-GTAACTTTTCAGAAGGTAAGGTGGG--AG-AGATGGAT-AATTGGAATTGACCAGATTTCTGGGATTTGATTTATTTTTAG
i otoGar3.GL873528          I 53 C 0
s canFam3.chr31              17994465 314 +  39895921 AGATATTATTTAAATACTATATGGTTACTGAG-GAAAAGAGATTGTTACAAATTG-----AGTGTTATATCAATCATATTTGGAGATGAATCAGTTAAAGGGAGAGTAACCATATATTTCAG-ACATCCAGGAAAGTACTTATTTATGCTCATTTTCCTGGCAAAtaattatta-t--taccaatttttattctcagaaatgtcccagtttaaatgataaata-ttatggGCTATCCCAGTTTATGTCAT-GCAGTTTTCCAAAATGTGGCATGGGGCAC-AGGTGAATAAATT-GAGTTGACCAGAATTTTAGGAT----TTTATTTTTCA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2282192 318 +   3081153 ATATATTCTTCAAATGTTATATGGTTAGT----GAGAAGAGATTTTTTTATATAGAGAATAGAATTAAATCAATAATCTTAGGAGAGAAATCAGTTAGTGGGaaggtgaccatatatcccagaatttccagtacaattatcatttatgcatattttcctagc--ataaaaattaatatcaccaattttcaccatccacggtctcccattttagttgatagatgataa--gattatccCCATTAAGAAGATAAAAATTTTCTGAAATGTGACATGGG--AACAGGTGGGTGAATTAGAGTTAGTCAAAATTCTAGGAT----TTTAGGGTTTA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e calJac3.chr21              26443602 1259 +  50472720 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=79873.000000
s hg38.chr21_GL383579v2_alt     34571 28 +    201197 GAGTGTTACATTGGC-------------CACATTCatagag
s panTro5.chr21               8656950 28 +  33445071 GAGTGTTACATTGGC-------------CACATTCatagag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192466 28 +  46275980 GAGTGTTACATTGGC-------------CACATTCatagag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8175021 28 -  13858734 GAGTGTTACATTGGC-------------CACATTCatagag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9221116 28 +  32716333 AAGTGTTACATTGGC-------------CACATTCatagag
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5169033 28 -  13750039 GAGTGTTACATTGGC-------------CACATTCatagag
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13870509 41 -  14377064 GAGTGTTACATTGACCATGGATATAGGACACATTCatagag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9109070 41 -   9889416 GAGTGTTACACTGACCATGGATATAGGACACATTCatagag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24819581 26 -  38779656 GAGGGTCATGCTG---------------GACATCCATACAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17994779 28 +  39895921 GAGCGTTAGATTGGT-------------CATCCTTAAAGAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2282510 32 +   3081153 GAGTGTTAACCTGTTTATC---------CATATACATATGA
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=6030.000000
s hg38.chr21_GL383579v2_alt     34599  4 +    201197 aag---------------t
s panTro5.chr21               8656978  4 +  33445071 aag---------------t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192494  4 +  46275980 aag---------------t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8175049  4 -  13858734 aag---------------t
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9221144  4 +  32716333 aag---------------t
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5169061  4 -  13750039 aag---------------t
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13870550  4 -  14377064 aag---------------t
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9109111  4 -   9889416 aag---------------t
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24819607 19 -  38779656 AAGAGAATTATGAACATCA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2282542  4 +   3081153 AAA---------------T
i dasNov3.JH578070          C 0 I 2
e cerAty1.NW_012002954v1     13398490 46 +  21915920 I
e macNem1.NW_012015021v1      4875095 46 -  30496662 I
e macFas5.chr3              167251254  1 - 192294377 I
e rheMac8.chr3              160614234 46 - 185818997 I
e canFam3.chr31              17994807  0 +  39895921 C
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I
e manLeu1.NW_012103476v1      3403020 46 +   7543664 I
e chlSab2.chr2               19900155 46 -  90373283 I

a score=686347.000000
s hg38.chr21_GL383579v2_alt     34603 332 +    201197 gggatttaataaaact---------aaaaaacttctgcacagg-aaaaaaaatagagta--aaaatgcagtgcatgaaatgggagaaaatatttgcaaaccata-------ttatcaaaaccatgtatcatgtcaggagttactctcca-----aaatataatatatat--------------------------------------------------------------------------------------------------------------aaatataaattgctacatcacaatagcaaaacaaaaac-aaacaataaataacccaattagaaaatgggcaag--gaatttgaacagacaattctccaaagaagaaatacaaatgggcaacaagt---------aaaaaaaaggtgcttaacatcactaatcatcaggaaaatgcaaatcaaaaccacaagaacatatc------
s panTro5.chr21               8656982 330 +  33445071 gggatttaataaaact---------aaaaaacttcta---agg-aaaaaaaatagagta--aaaatgcagtgcatgaaatgggagaaaatatttgcaaaccata-------ttatcaaaaccatatatcatgtcaggagttactctcca-----aaatatcatatatat--------------------------------------------------------------------------------------------------------------aaatataaattgctacatcacaatagcaaaacaaaaacaaaacaataaataacccaattagaaaatgggcaag--gaatttgaacagacaattctccaaagaagaaatacaaatgggcaacaagt---------aaaaaaaaggtgcttaatatcactaatcatcaggaaaatgcaaatcaaaaccacaagaacatatc------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192498 333 +  46275980 gggatttaataaaact---------aaaaaacttctgcacagg-aaaaaaaatagagta--aaaatgcagtgcatgaaatgggagaaaatatttgcaaaccata-------ttatcaaaaccatatatcatgtcaggagttactctcca-----aaatatcatatatat--------------------------------------------------------------------------------------------------------------aaatataaattgctacatcacaatagcaaaacaaaaacaaaacaataaataacccaattagaaaatgggcaag--gaatttgaacagacaattctccaaagaagaaatacaaatgggcaacaagt---------aaaaaaaaggtgcttaatatcactaatcatcaggaaaatgcaaatcaaaaccacaagaacatatc------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8175053 331 -  13858734 gggatttaataaaact---------aaaaaacttctgcacagg--aaaaaaatagagta--aaaatgcagtgcgtgaaatgggagaaaatatttgcaaaccata-------ttatcgaaaccatatatcatgtcaggagttactctcca-----aaatataatatatat--------------------------------------------------------------------------------------------------------------aaatataaattgctacatcacaatagcaaaacaaaaacaaaacaataaataacccaattagaaaatgggcaag--gaatttgaacagacaattctccaaagaagaaatacaaatgggcaacaagt----------aaaaaaaggtgcttaacatcactaatcatcaggaaaatgcaaatcaaaaccacaagaacatatc------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9221148 347 +  32716333 gggatttaataaaact---------aaaaaacttctgcacaggaaaaaaaaatagagta--aaaatgcagtgcatgaaatgggagaaaatatttgcaaaccata--------tatcaaaaccatatatcatgtcaggagttactctccaaatataaatataatatatat--------------------------------------------------------------------------------------------------------------aaatataaattgctacatcacaatagcaacacaaaaacaaaacaataaataacccaattcgaaaatgggcaag--gaatttgaacagacaattctccaaagaagaaatacaaatgggcaacaagtaaaaaaaaaaaaaaaaacgtgcttaacatcactaatcatcaggaaaatgcaaatcaaaaccacaagaacatatc------
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5169065 339 -  13750039 gggatttaatcaaact---------aaaaaccttctgcacaggaaaaaaaagtagagta--aaaatgcaatgcatgaaatggaagaaaatatttgcaaaccata--------tattgaaaccatatatcatgtcaggagttactcttca-----aaatataatctataa--------------------------------------------------------------------------------------------------------------aagtataaattgctacaacacaatggcaaaacaaaaacaaaacaataaataatccaattagaaaatgggcaag--gaatttgaatagataattatccaaagaagaaatacaaatggacaacaagt---aaaaaaaaaaaaaaggtgtttaacatcatcaatcatcaggaaaatgcaaatccgaaccacaagaacatacc------
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13870554 420 -  14377064 gggattgaatcaaactaaaaaaaaaaaaaaaagtttgcacaga-caaaaaa--agagta--aaattgcaatgcatgaaatgggagaagatatttgcaaacccta--------tatccaaaccatatattatgccaggagttaataccca-----aagtattatatatat-------------aatatatatatatgctaca-------tatctatgtgtgtg-tgtgtgtgta-tatatatatatatatatatatgtatatatatataatac-------aaatataaatggctacatctcaatagcaaaacaaaaacaaaacaataaataaaccaattagaaattggtcaag--gaatttgaacagacaattttgcaaagaagaaatacaaatggccaacaggt--------ataagaaaagatgctaaacatcactaatcatcaggaaaatgcaaatcaaaaccacaacaacatac-------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9109115 421 -   9889416 gggatttaatcgaact-------aaaaaaaccttttgcacaga-gaaaaaa--agagta--aaattgcaatgcatgaaatgggagaaaatatttgcaaaccata--------tatccaaaccatatattatgtcaggggttaataccca-----aagtattatatatatatatatatgtagcagtatatatatatattatactttgggtatatatatatatgctaca----------------gtatatatatgtgtgtgtatatataatat-------aaatataaattgctacatctcaatagcaaaacaaaaacaaaacaataaataacccaattagaaattggccaaggtgaatttgaatagacaattttgcaaagaagaaatacaaatggccaacagat--------ataagaaaagatgctaaacatcactaatcatcgggaaaatgaaaatcaaaaccacaacaacatac-------
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24819626 428 -  38779656 GGGATGCCATCCAACC---------AAAAAACTTGTGCATAGA-AAACAGTGAAAGGTGCTACTATGTAGCACTTACTATGAAAGATGTTCCTTGTCACCTTTAACTCTAGTCACCTTCGACTTCTATAATTACAAGAGATA-----TA-----AGATACAATGTAGAA-------------------GACAGAAAATGTTATTGGCTTAATTTCTCTTATAATTTTAATACAGTTTTTTCCTTTCTTAAAATGTGTATACATTTTTGCACCCTCTGTGATGTGTGTATTGctgcaactcaatagcaaaaaaa-----aagtcacaaataa-ccaatta-aaaatgaataaa--gaacttaaggaggtaatcccctaaagaagacctaaaagtggcccacaggt--------ataaaaaaagatgctcagtctcatttatcatcagagaaatgcaaatccaaactccggaggtgcattcctttc
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2282546   2 +   3081153 I
e cerAty1.NW_012002954v1     13398490  46 +  21915920 I
e macNem1.NW_012015021v1      4875095  46 -  30496662 I
e macFas5.chr3              167251254   1 - 192294377 I
e rheMac8.chr3              160614234  46 - 185818997 I
e canFam3.chr31              17994807   0 +  39895921 C
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I
e manLeu1.NW_012103476v1      3403020  46 +   7543664 I
e chlSab2.chr2               19900155  46 -  90373283 I

a score=1253421.000000
s hg38.chr21_GL383579v2_alt     34935 169 +    201197 acctc-acagctatcaggatgat--------tgttat-tacaaa--gaagggaaaaaaa---------aagtgttggtaaggatgtggagaaattggaacccttttacactgttggtgggaatgtaaaatgatgcagccactatgaaaaaccctgtaag-tttcttcaaaaaactaaaaacagaacaacca
s panTro5.chr21               8657312 169 +  33445071 gcctc-acagctatcaggatgat--------tgttat-tacaaa--gaaggaaaaaaaa---------aagtgttggtaaggatgtggagaaattggaacccttttacactgttggtgggaatgtaaaatgatgcagccactatgaaaaaccctgtaag-tttcttcaaaaaactaaaaacagaacaacca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192831 168 +  46275980 gcctc-acagctatcaggatgat--------tgttat-tacaaa--gaagg-aaaaaaa---------aagtgttggtaaggatgtggagaaattggaacccttttacactgttggtgggaatgtaaaatgatgcagccactatgaaaaaccctgtaag-tttcttcaaaaaactaaaaacagaacaacca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8175384 175 -  13858734 acctc-acagctatcaggatgat--------tgttat-tacaaa--gaaggaaaaaaaaaa--aga-taagtgttggtaaggatgtggagaaattggaacccttttacactgttggtgggaatgtaaaatgatgcagccactatgaaaaaccctgtaag-tttcttcaaaaaactaaaaacagaacaacca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9221495 174 +  32716333 acctc-acagctatcaggacgat--------tgttat-tacaaa--aaaggaaaaaaaa-a--aga-caagtgttgtttaggatgtggagaaattggaacccttatacactattggtgggaatgtaaaatggtccagccactgtgaaaaaccctgtaag-cttcttcaaaacactaaaaacagaacaacca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614280 176 - 185818997 acctc-acagctatcaggatgat--------tgttat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaagtggagaaattggaacccttatacactgtt-gtgggaatgtaaaatggcgcagccactataaaaaacaatgtaag-cttcttcaaaaaactaaaaacagaacaacca
i rheMac8.chr3              I 46 C 0
s macFas5.chr3              167251255 176 - 192294377 acctc-acagctatcaggatgat--------tgttat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaagtggagaaattggaacccttatacactgtt-gtgggaatgtaaaatggcgcagccactataaaaaacagtgtaag-cttcttcaaaaaactaaaaacagaacaacca
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4875141 176 -  30496662 acctc-acagctatcaggatgat--------tgttat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaaatggagaaattggaacccttatacactgtt-gtgggaatgtaaaatggcgcagccactataaaaaacagtgtaag-cttcttcaaaaaactaaaaacagaacaacca
i macNem1.NW_012015021v1    I 46 C 0
s cerAty1.NW_012002954v1     13398536 176 +  21915920 acctc-acagctatcaggatgat--------tgttat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaagtggagaaattggaacccttatacactgtt-gtgggaatgtaaaatggcgcagccactataaaaaacagtgtaag-cttcttcaaaaaactaaaaacagaacaacca
i cerAty1.NW_012002954v1    I 46 C 0
s chlSab2.chr2               19900201 176 -  90373283 acctc-acagctatcaggatgat--------tgttat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaagtggagaaattggaacccttatacactgtt-gtgggaatgtaaaatggcacagccactataaaaaacagtgtaag-cttcttcaaaaaactaaaaacagaacaatca
i chlSab2.chr2              I 46 C 0
s manLeu1.NW_012103476v1      3403066 176 +   7543664 acctc-acagctatcaggatgat--------tattat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaagtggagaaattggaacccttatacactgtt-gtgggaatgtaaaatggcgcagccactataaaaaagagtgtaag-cctcttcaaaaaactaaaaacagaacaacca
i manLeu1.NW_012103476v1    I 46 C 0
s colAng1.NW_012120598v1      5169404 176 -  13750039 acctc-acagctatcaggatgat--------tgttat-tacaaa--aaaaggaaaataaaaacaga-taagtgttggtaaggaagtggagaaattggaacccatatacactgtt-gtgggaatgtaaaatggcgcagctactatgaaaaacagtgtaag-cttcttcaaaaaactaaaaacagaacaacca
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13870974 182 -  14377064 gcctc-acacctattaggttactcttttgcgtgttat-tacaaa--aaaggacaaaaaa---caga-taagtgctggtgaggatgtggagaaattggaacccttatacactgttagtgggaatataaaatggtgcagccactatgcaaaacaatgtaag-gttcctcaaaaaactaaaaacagaacagcca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9109536 182 -   9889416 gcctc-acacctattaggttacttttttgtgtgttac-tacaaa--aaagaacaaaaaa---cagattaagtgttggtgaggatgtggagaaattggaacccttatatactgttgatgggaatacaaaatggtgcagccactaag-aaaacaatgtaag-gttcttcaaaaaactaaaaatggaacagcca
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24820054 181 -  38779656 acttcaacacctgttaggatagc--------tgttataaacaaactaacaaacaagaaaacacagg-taattattggtgaggattcagaaatatgggaccctttctatactgtt-gctggaatgtaaaactgtattgtaattatggaaaacagtatgagactttttcaaaacacaaaaaataaaattacca
i otoGar3.GL873528          C 0 I 1592
e dasNov3.JH578070            2282546   2 +   3081153 I
e canFam3.chr31              17994807   0 +  39895921 C
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I

a score=21924.000000
s hg38.chr21_GL383579v2_alt     35104 3 +    201197 tat
s panTro5.chr21               8657481 3 +  33445071 tat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22192999 3 +  46275980 tat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8175559 3 -  13858734 tat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9221669 3 +  32716333 tat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614456 3 - 185818997 tat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251431 3 - 192294377 tat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875317 3 -  30496662 tat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13398712 3 +  21915920 tat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900377 3 -  90373283 tat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403242 3 +   7543664 tat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5169580 3 -  13750039 tat
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13871156 3 -  14377064 tac
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9109718 3 -   9889416 tac
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2282546 2 +   3081153 I
e canFam3.chr31              17994807 0 +  39895921 C
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I
e otoGar3.GL873528           24820235 1592 -  38779656 I

a score=3604667.000000
s hg38.chr21_GL383579v2_alt     35107 478 +    201197 aatccagctgtcccacttctggatatatagccaaagtaattgaaaccaggatttcatagagttaacccacattctcatattccttgcacattattcacaatagtcaagatacagaaaaataccctgaatatccgtaagtggatgaata--taaataagatgtggtag--acatgatatggaatatcattcagctttaacg-aagaaggaaattctgccctacatgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaagacgaatactgcctaactccagttatatgaggaatctgaaa----taaactgataaacacagaataagactatggttgtcaagggtttgtgggaggaaaaaatgagaagttgctgttcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaaac
s panTro5.chr21               8657484 475 +  33445071 aatccagctgtcccacttctggatatatagccaaagtaattgaaaccaggatttcatag---ttacccacattctcatattccttgcacattattcacaatagtcaagatacagaaaaataccctgaacatccgtaagtggatgaata--taaataagatgtggtag--acatgatatggaatatcattcagctttaacg-aagaaggaaattctgccctacatgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaagacgaatactgcctaactccagttatatgaggaatctgaaa----taaactgataaacacagaataagactatggttgtcaagggtttgtgggaggaaaaaatgagaagttgctgttcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaaac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193002 477 +  46275980 aatccagctgtcccacttctggatatatagccaaagtaattgaaaccaggatttcatagag-ttacccacattctcatattccttgcacattattcacaatagtcaagatacagaaaaataccctgaacatccgtaagtggatgaata--taaataagatgtggtag--acatgatatggaatatcattcagctttaacg-aagaaggaaattctgccctacatgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaagacgaatactgcctaactccagttatatgaggaatctgaaa----taaactgataaacacagaataagactatggttgtcaagggtttgtgggaggaaaaaatgagaagttgctgttcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaaac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8175562 475 -  13858734 aatccagctgtcccacttctggatatatagccaaagtaattgaaaccaggatttcatacag-ttacccacattctcatattccttgcacattattcacaatagtcaagatacagaaaaataccctgaatatccgtaagtggatgaata--taaataagatgtggtag--acatgatatggaatatcattcagctttaaca-aagaaggaaattgtgccctacatgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaagacgaatactgcctaactccagttatatgaggaatctgaaa----taaactgataaacacagaataagactatggttgtcaagggtttgtgggaggaaaaaatgagaagttgctgttcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaa--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9221672 475 +  32716333 aatccagctgtcccacttctggatatgtagctgaagtaattgaaaccaggatttcacag---ttacccacattctcatattccttgcacattattcacaatagtcaagataaagaaaaataccctgaatatccatcagtggatgaata--taaataaaatgtggtag--acatgatatggaatatcattcagctttaaca-aagaaggaaattctgccctacatgacagcctgggtgaacccggaggacactatgctaagtgaaataagcca--gttacagaaagacgaatactgcgcgagtccagttatatgagggatctgaaa----taaactgataaacacagaataagattaaggttgtcaagggtttgtgggaggaaaaaatgagaagttggtgttcaacaggtataaagattcagttacagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gtcaacaatactgttaaac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614459 470 - 185818997 aatccagctatcccacttctgtatatatagtcaaagtaattgaaaccaggatttcatagag-ctacccacattctcgtattccttgcacattattcacaatagtcaagatgcagaaaaataccctgaatatccatcagtggacgaata--taaataaaatgtggtag--acatgataggggatatcatccagccttaaca-aagaaggaaattcagccctacgtgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaggacaaatactgcatgactccagttatgtgagaaatctgaaatagttaaactgataaacacagaatgagtttatggttgtcaagggtttgtgggaggaaac---------ctgttgctcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaa--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251434 470 - 192294377 aatccagctatcccacttctgtatatatagtcaaagtaattgaaaccaggatttcatagag-ctacccacattctcgtattccttgcacattattcacaatagtcaagatgcagaaaaataccctgaatatccatcagtggacgaata--taaataaaatgtggtag--acatgataggggatatcatccagccttaaca-aagaaggaaattcagccctacgtgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaggagaaatactgcatgactccagttatgtgagaaatctgaaatagttaaactgataaacacagaatgagtttatggttgtcaagggtttgtgggaggaaac---------ctgttgctcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaa--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875320 469 -  30496662 aatccagctatcccacttctgtatatatagtcaaagtaattgaaa-caggatttcatagag-ctacccacattctcgtattccttgcacattattcacaatagtcaagatgcagaaaaataccctgaatatccatcagtggacgaata--taaataaaatgtggtag--acatgataggggatatcatccagccttaaca-aagaaggaaattcagccctacgtgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaggacaaatactgcatgactccagttatgtgagaaatctgaaatagttaaactgataaacacagaatgagtttatggttgtcaagggtttgtgggaggaaac---------ctgttgctcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaa--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13398715 470 +  21915920 aatccagctatcccacttctgtatatatagccaaagtaattgaaaccaggatttcatagag-ctacccacattctcgtattccttgcacattattcacaatagtcaagatgcagaaaaataccctgaatatccatcagtggacgaata--taaataaaatgtggtag--acatgataggggatatcatccagccttaaca-aagaaggaaattcagccctacgtgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaggacaaatactgcatgactccagttatgtgagaaatctgaaatagttaaactgataaacacagaatgagtttatggttgtcaagggtttgtgggaggaaac---------ctgttgctcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaa--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900380 470 -  90373283 aatccagctatcccacttctgtatatagagtcaaagtaattgaaaccaggatttcatagag-ctacccacattctcgtattccttgcacattattcactatagtcaagatgcagaaaaataccctgaatatccatcagtggatgaata--taaataaaatgtagtag--acatgataggggatatcatccagccttaaca-aagaaggaaattcagccctacgtgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaggacaaatactgtatgactccagttatgtgagaaatctgaaatagttaaactgataaacacagaatgagtttatggttgtcaagggtttgtgggaggaaac---------ctgttgctcaacacgtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaataatactgttaa--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403245 470 +   7543664 aatccagctatcccacttctgtatatatagtcaaagtaattgaaaccaggatttcatagag-ctacccacattctcgtattccttgcacattattcgcaatagtcaagaggcagaaaaataccctgaatagccatcagtggacgaata--taaataaaatgtggtag--acatgatgtgggatatcatccagccttaaca-aagaaggaaattcagccctacgtgacagcatgggtgaacctggaggacactgtgctaagtgaaataagcca--gttacaggaggataaatactgcatgactccagttatgtgagaaatctgaaatagttaaactgataaacacagaatgagtttatggttgtcaagggtttgtgggaggaaac---------ctgttgttcaacacgtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatagtgttaa--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5169583 470 -  13750039 aatccagctgtcccacttctggatatatagtcaaagtaattgaaaccaggatttcatagag-ctacccacattctcatattccttgcacattattcacaatagtcaagatacagaaaaataccctgaatatccatcagtggacgaata--taaataaaatgtggtag--acatgatatgggatattatccaactttaaca-aagaaggaaattcagccctatgtgacagcataggtgaacctggaggacactgtgctaagtgaaataagcca--gttacagaaggacgaatactgcatgacttcagttacatgagaaatctgaaatagttaaactgataaacacagaatgagtttgtggttgtcaagggtttgtgggaggaaac---------ctgttgttcaacaggtataaagattcagttatagaagatgtgtaagtttaaaagatctactgtacaatattgtgcct--gttaacaatactgttaa--
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13871159 479 -  14377064 aatccagctgtcccacttctggatatatacccaaaataattgaaaccaatgtttcacagag-ttacccacattctcatattccttgaacattattcgcaatagtcaagataaagaaaaataccctgaacattcatcaatggatgcata--taaataaaatgtggtag--acatggt--ggagtagcactcaactttaaca-aagaaggaaattctgccctatgtgacagcatgggtgaacctggaggacattatgctaagttaaataagcca--gttacagaaggataaatactacaagactcgagttatatgaggattctgaaacagttaaactgataaaaacagaataaaattatggcgatcaagggcctgtgggagggaaaaatggtaagttgctgttcaacaggtataaagattcagttctacgagatgtgtaagtttaaaagatttgttgtacaatattgtgcctacgttaataatactgttaa--
i cebCap1.NW_016107322v1    C 0 I 301
s aotNan1.NW_018487195v1      9109721 479 -   9889416 aatccagctgtcccacttctggatatatatccaaaataattgaaaccaatgtttcacagag-ttacccacattctcatattccttgaacattattcacaatagtcaagataaagaaaaacaccctgaacattcatcaatggatgcata--taaataaaatgtggtag--acatgat--ggagtatcactcaactttaaca-aagaaggaaattctgccctatatgacagcatgggtgaacctggaggacattatcttaagttaaataagcca--gttacaaaaggacaaatactgcatgactccagttatatgaggaatctgaaacagttaaactgataaaaacagaataaaattatggtgatcaagggcttgtgggagggaaaaatggtaagttgctgttcaacaggtataaagattcagttctacgagatgtgtaagtttaaaagatttgttgtacaatattgtgcctatgttaataatactgttaa--
i aotNan1.NW_018487195v1    C 0 I 1
s otoGar3.GL873528           24821827 426 -  38779656 Aatacagcagtcccactctcgggtatacatccaaaacaactgaaatcaggacctcagagag-atggctgcactcccatgccctcagtatatcagtcacagtagccaggacac-----gctaccaaaaatgttcatcagtagataaacagtcaaagaagatttggtatacacatgccacagactattattcagccttaagagaaggaggcaatactggaagatgtgacaatatcgatgaaacaggaggtcaacataccaagtggaataaaccatcatttc------------actgcataattccacttctttaaagaatctaaaatagtcaaactcatagaaaca-agtacaatcatgactgttaggaactaggggaaaggggaagtgggaaattgctcttgcagaggtgtgaag--------ttggacgatgagt-------aaaaatttattgagcaa-------------------------------
i otoGar3.GL873528          I 1592 C 0
e dasNov3.JH578070            2282546   2 +   3081153 I
e canFam3.chr31              17994807   0 +  39895921 C
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I

a score=1097.000000
s hg38.chr21_GL383579v2_alt     35585 2 +    201197 ct
s panTro5.chr21               8657959 2 +  33445071 tt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193479 2 +  46275980 tt
i panPan2.chr21             C 0 C 0
s nomLeu3.chr25               9222147 2 +  32716333 tt
i nomLeu3.chr25             C 0 C 0
s aotNan1.NW_018487195v1      9110201 2 -   9889416 ct
i aotNan1.NW_018487195v1    I 1 C 0
e dasNov3.JH578070            2282546 2 +   3081153 I
e cerAty1.NW_012002954v1     13399185 0 +  21915920 C
e macNem1.NW_012015021v1      4875789 0 -  30496662 C
e macFas5.chr3              167251904 0 - 192294377 C
e rheMac8.chr3              160614929 0 - 185818997 C
e cebCap1.NW_016107322v1     13871638 301 -  14377064 I
e canFam3.chr31              17994807 0 +  39895921 C
e calJac3.chr21              26443602 1259 +  50472720 I
e saiBol1.JH378168            8648830 1850 +  13128814 I
e otoGar3.GL873528           24822253 0 -  38779656 C
e colAng1.NW_012120598v1      5170053 0 -  13750039 C
e manLeu1.NW_012103476v1      3403715 0 +   7543664 C
e gorGor5.CYUI01015003v1      8176037 0 -  13858734 C
e chlSab2.chr2               19900850 0 -  90373283 C

a score=43418.000000
s hg38.chr21_GL383579v2_alt     35587 9 +    201197 aaaaaaaat
s panTro5.chr21               8657961 9 +  33445071 aaaaaaaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193481 9 +  46275980 aaaaaaaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176037 9 -  13858734 aaaaaaaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222149 9 +  32716333 aaaaaaaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614929 6 - 185818997 ---aaaaat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251904 6 - 192294377 ---aaaaat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875789 6 -  30496662 ---aaaaat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399185 6 +  21915920 ---aaaaat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900850 6 -  90373283 ---aaaaat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403715 6 +   7543664 ---caaact
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170053 6 -  13750039 ---aaaaat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26444861 8 +  50472720 -aaaaaaac
i calJac3.chr21             I 1259 I 1
s saiBol1.JH378168            8650680 8 +  13128814 -aagaaaaa
i saiBol1.JH378168          I 1850 I 1
s cebCap1.NW_016107322v1     13871939 8 -  14377064 -aaaaaaaa
i cebCap1.NW_016107322v1    I 301 I 1
s aotNan1.NW_018487195v1      9110203 9 -   9889416 gaaaaaaat
i aotNan1.NW_018487195v1    C 0 I 302
e dasNov3.JH578070            2282546 2 +   3081153 I
e canFam3.chr31              17994807 0 +  39895921 C
e otoGar3.GL873528           24822253 0 -  38779656 C

a score=440361.000000
s hg38.chr21_GL383579v2_alt     35596 45 +    201197 tgttgagggtacatctcatgttaagtgttcttaccacaata-----aaaa
s panTro5.chr21               8657970 45 +  33445071 tgttgagggtacatctcatgttaagtgttcttaccacaata-----aaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193490 43 +  46275980 tgttgagggtacatctcatgttaagtgttcttaccacaat-------aaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176046 45 -  13858734 tgttgagggtacatctcatgttaagtgttcttaccacaata-----aaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222158 45 +  32716333 tgttgagggtacatctcatgttaagtgttcttaccacaata-----aaaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614935 44 - 185818997 tgtggcgggtatatctcatgttaagtgttcttaccacaat------aaaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251910 44 - 192294377 tgttgagggtatatctcatgttaagtgttcttaccacaat------aaaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875795 44 -  30496662 tgttgagggtatatctcatgttaagtgttcttaccacaat------aaaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399191 44 +  21915920 tgttgagggtacatctcatgttaagtgttcttaccacaat------aaaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900856 44 -  90373283 tgttgagggtacatctcatgttaagtgttcttaccacaat------aaaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403721 44 +   7543664 tgttgagggtacatctcatgttaagtgttcttaccacaat------aaaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170059 44 -  13750039 tgttgagggtacatctcatgttaagtgttcttaccacaat------aaaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26444870 50 +  50472720 tgttgggtgtacatctcatgttaagtgttcttaccgcaaaaaaaaaaaaa
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8650689 50 +  13128814 tattgggggtatatctcatgttaagtgtttttaccacaataaTAAAAAAA
i saiBol1.JH378168          I 1 C 0
s cebCap1.NW_016107322v1     13871948 50 -  14377064 tgttgggggtacatctcatgttaagtgtttttaccacaataaTAATAAAA
i cebCap1.NW_016107322v1    I 1 C 0
s aotNan1.NW_018487195v1      9110514 50 -   9889416 tgttgggggtacatctcatgttaagtgttcttaccacaataacaaCAAAA
i aotNan1.NW_018487195v1    I 302 C 0
s otoGar3.GL873528           24822253 31 -  38779656 --------gtaaatctc-----aggtattcttaccacagt------aaaa
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2282546  2 +   3081153 I
e canFam3.chr31              17994807  0 +  39895921 C

a score=175831.000000
s hg38.chr21_GL383579v2_alt     35641 25 +    201197 AAAAT-TA-----------------------------TCTATAAAGACGGTTGAG
s panTro5.chr21               8658015 25 +  33445071 AAAAT-TA-----------------------------TCTATAAAGACGGTTGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193533 25 +  46275980 aaAAT-TA-----------------------------CCTATAAAGACGGTTGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176091 25 -  13858734 AAAAT-TA-----------------------------TATATAAAGATGGTTGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222203 25 +  32716333 AAAAT-TA-----------------------------TCTATAAAGATGGTTGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160614979 25 - 185818997 TAAAT-TA-----------------------------ACTCTAAAGATGGTTGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251954 25 - 192294377 TAAAT-TA-----------------------------ACTCTAAAGATGGTTGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875839 25 -  30496662 TAAAT-TA-----------------------------ACTCTAAAGATGGTTGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399235 25 +  21915920 TAAAT-TA-----------------------------ACTCTAAAGATGGTTGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900900 25 -  90373283 TAAAT-TA-----------------------------ACTCTAAAGATGGTTGAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403765 25 +   7543664 TAAAT-TA-----------------------------ACTCTAAAGATGGTTGAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170103 25 -  13750039 TAAAT-TA-----------------------------ACTCTAAAGATGGTTCAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26444920 55 +  50472720 aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaTTTTGTAAAGATGGTTAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8650739 26 +  13128814 TATATATA-----------------------------TCTATAAAGATGGTTAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13871998 23 -  14377064 AAAAA--------------------------------TCTGTAAATGTGGTTAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9110564 25 -   9889416 AAAAT-TA-----------------------------GCTGTAAAGATGGTTAAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24822284 23 -  38779656 aAGTT--------------------------------GTCACAAAGATGGGTGAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17994807 25 +  39895921 AAAAT-TC-----------------------------TCTACAAGAATGATTGAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2282546  2 +   3081153 I

a score=1693516.000000
s hg38.chr21_GL383579v2_alt     35666 161 +    201197 CCTGGAGCGAAGAAATACATAACAAATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGATATAGAT------TTTTTTT---TTCTTAATTTGATAATggaa--taatggtcatgaaataagactagtgagaaagtaaga
s panTro5.chr21               8658040 159 +  33445071 CCTGGAGCGAAGAAATACATAAC-AATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGA-------TTTTTTT---TTCTTAATTTGATAATggaa--taatggtcatgaaataagactagtgagaaagtaaga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193558 159 +  46275980 CCTGGAGCGAAGAAATACATAAC-AATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGA-------TTTTTTT---TTCTTAATTTGATAATggaa--taatggtcatgaaataagactagtgagaaagtaaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176116 159 -  13858734 CCTGGAGCGAAGAAATACACAAC-AATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAC--GTATGTGGAGGTAGAGAAG--ATGACATAGA-------TTTTTTT---TTCTTAATTTGATGATggaa--taatggtcatgaaataagactagtgagaaagtaaga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222228 160 +  32716333 CCTGGAGCGAATAAATACACAAC-AATC-ATGTCTGGAAGCATTTAATAAAT--TA--GAGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGAT------TTTTTTT---TTCTTAATTTGATAATggaa--taatggtcatgaaataagactagtgagaaagtaaga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615004 162 - 185818997 CCCGGAGCGAAGAAACATACAAT-GATA-ATGTCTGGAAGCATTTAATAAAT--TA--AGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGATT----AATTATTT---GTCTTAATTTGATGATgaaa--tagtggtcatgaaataacgctagtgagaaagtaaga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167251979 162 - 192294377 CCCGGAGCGAAGAAACATACAAT-GATA-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGATT----AATTATTT---GTCTTAATTTGATGATgaaa--tagtggtcatgaaataacgctagtgagaaagtaaga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4875864 162 -  30496662 CCCGGAGCGAAGAAACATACAAT-GATA-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGACT----AATTATTT---GTCTTAATTTGATGATgaaa--tagtggtcatgaaataacgctagtgagaaagtaaga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399260 162 +  21915920 CCCGGAGCGAAGAAACACACAAT-GATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAATGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGATT----AATTTTTT---TTCTTAATTTGATGATgaaa--taatggtcatgaaataacgctagtgagaaagtaaga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19900925 162 -  90373283 CCTGGAGCGAAGAAACACACAAT-GATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGATT----AATTTTTT---TTCTTAATTTGATGATgaaa--taatggtcatgaaataacgctagtgagaaagtaaga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403790 162 +   7543664 CCCGGAGCGAAGAAACACACAAT-GATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAATGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGATT----AATTTTTT---TTCTTAATTTGATGATgaaa--taatggtcatgaaataacgctagtgagaaagtaaga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170128 160 -  13750039 CCCGAAGTGAAGAAAC--ACAAT-GATC-ATGTCTGGAAGCATTTAATAAAT--TA--GGGAGTGTCAGAGAG--GTATGTGGAGGTAGAGAAG--ATGACATAGATT----AATTTTTT---TTCTTAATTTGATGATgaaa--taatggtcttgaaataatgctagtgagaaagtaaga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26444975 165 +  50472720 CCTGAACTGAAGAAACACTCAAC-AATC-ATGTCTAGAAGCATTTAGTAAGT--TA--GAGAGTGTCAGAGAGGTGTATGTGGAGGTAGAGAAG--ATGACATGGATT----AATTTTTT--TTTCTTAATTTGATAACGAAA--TGATGGTCATGAAATAACACTACTGAGAAAGCAAGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8650765 159 +  13128814 CCTGGAGTGAAGAAACACTCCAC-AATC-ATGTCTAGAAGCATTTAATAAGT--TA--CAGAGTATCCAAGAA--TTATGTGGAGGTAGAGAAG--ATGACATGGATT----AAATTTTT------TTAATTTGATAATGGAA--TGATGGTCATGAAATAACACTACTGAGAAAGTAAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872021 165 -  14377064 CCTGGAGTGAAGAAACACTCAAC-AATC-ACGTCTAGAAGCATTTAACAAGT--TA--CAGAGTGTCCAAGAG--TTATGTGGAGGTAGGGAAG--ATGACGTGGATT----AAATTTTTTTTTTCTTAGTTTGATAATggaa--tgatggtcatgaaataacactactgagaaagtaaga
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9110589 164 -   9889416 CCCGGAGTGAAGAAACACTCAAC-AATC-ATGTCTAGAAGCATTTAATGAGT--TA--CAGAGTGTCAGAGAG--GTACGTGGAGGTAGAGAAG--ATGACGTGGATT----AAATTTTT-TTTTCTTAATTTGATAATGAAA--TGatggtcatgaaataacactactgagaaagtaaga
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24822307 170 -  38779656 TCAGAAGCGAACACACAGAAAGA-AAGAGATGCTCattaatatttaataaat--taatGGCAATGTCAGAAAG--ATTTGTGGAGGTAGAGAGTGCATCACATCTGTTAAAAAGTCTTTT---TCCCTAATTGAATAAATTaa--tgat-gtcctgaagcagcaacagcgaggaagtagga
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17994832 164 +  39895921 CCTAAAGTGAAGAAGC--ACAAA-AGCC-ATGTCTCTAAGTCTTTAATAAGTGATA--AATAATATCATTGAG--ATTTCTGTAGGTCAAGTGG--ATGACATAGATT--TAAAAGTTCT---TTTTTAACTTCATAAAGGAA--TGATGGCCATGACATGGCAATAGTGAGCCAGTAGGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2282548 165 +   3081153 CCTGGACTGAAGAATCATTTAAT--ACC-ATGTCTCTAAGTTTTTAATGAATGAGA--GGGAGTGTCAGAGAG--ACTTAAGTAAATAGGGAGG--ATGACATAGAGG----ATTTCTTT---TTCTTAGTTTCATAAAAGAATGTGATGTTCATGATGTAGCAATAGTGAATAAGTAGGA
i dasNov3.JH578070          I 2 I 1321

a score=1158704.000000
s hg38.chr21_GL383579v2_alt     35827 150 +    201197 caacaaatctaccttgcagtcctcaggtgt-a--agagagagggaat-aag-gaataccatttaggaggacttcaaaaaaa-aaagatttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAACATAGCAGTTTAAAATAACAGCT
s panTro5.chr21               8658199 150 +  33445071 caacaaatctaccttgcagtcctcaggtgt-a--agagagagggaat-aag-gaataccatttaggaggacttcaaaaaaa-aaagatttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAACATAGCAGTTTAAAATAACAGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193717 149 +  46275980 caacaaatctaccttgcagtcctcaggtgt-a--agagagagggaat-aag-gaataccatttaggaggacttc-aaaaaa-aaagatttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAACATAGCAGTTTAAAATAACAGCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176275 150 -  13858734 caacaaatctaccttgcagtcctcaggtgt-a--agagagagggaat-aag-gaataccatttaggaggacttcaaaaaaa-aaagatttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAACATAGCAGTTTAAAATAACAGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222388 152 +  32716333 caacaaatctaccttgcagtcctcaggtgt-aagagagagagagaat-aag-gaataccatttaggaggacttcaaaaaaa-agagatttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAACACAGCAGTTTAAAATAACAGCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615166 151 - 185818997 taacaaatttacctcacagtcctgaggtgt-a--agagagagggaat-aag-gaatatcatttaggaggacttcaaaaaaaaaaaagcttccttggagaagagctaagcttcagttaaggtaaactggcagagaacAGCAGTTTAAAATAACAGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252141 151 - 192294377 taacaaatctacctcacagtcctgaggtgt-a--agagagagggaat-aag-gaatatcatttaggaggacttcaaaaaaaaaaaagcttccttggagaagagctaagcttcagttaaggtaaactggcagagaacAGCAGTTTAAAATAACAGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876026 151 -  30496662 taacaaatctacctcacagtcctgaggtgt-a--agagagagggaat-aag-gaatatcatttaggaggacttcaaaaaaataaaagcttccttggagaagagctaagcttcagttaaggtaaactggcagagaacAGCAGTTTAAAATAACAGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399422 144 +  21915920 taacaaatctaccttgca-----gaggtgt-a--agggagagggaat-aag-gaatatcatttaggaagacttcaaaaga--aaaggcttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAGCACAGCAGTTTAAAATAACAGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901087 149 -  90373283 taacaaatctacctcgcagtcctgaggtgt-a--agggagagggaataaag-gaatatcatttaggaggacttc---aaaaagaaaggttccttggagaagagctaagcttcagttaaggtaaactggcagagaacAGCAGTTTAAAATAACAGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3403952 151 +   7543664 taacaaatctacctcgcagttctgaggtgt-a--agggagagggaat-aag-gaatgtcatttaggaggacttcaaaaaaaaaaaagcttccttggagaagagctaagcttcagttaaggtaaACTGGCAGAGCACAGCAGTTTAAAATAACAGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170288 149 -  13750039 taacaaatctaccttgcagtcctgaggtat-a--agggagagggaat-aag-gaatatcatttacgaggacttcaaaaaa--aaaggcttccttggagaagagctaagcttcagttaaggtaaactggcagagaacAGCAGTTTAAAATAATAGTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26445140 111 +  50472720 CAACAAATCTGCCTTGCAGTTCTGAAGTGGAA--AAAAACAGGGAGT-AAG-GAATACCACTTAGGAGGACTTCAGGAAAA--------------------------------------GTAAACTGGAACA--CTGG-AGTTTAAAATAACAGCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8650924 111 +  13128814 CAACAAATCTACTTTGTAGTCCTGAAGTGT-A--AGAGACAGGGAGG-AAG-GAATACCTCTTAGGAGGACTTCAGAAAAA--------------------------------------GTAAACTGGAACA--CCAGTAGTTTAAAACAACAGCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872186 109 -  14377064 caacaaatctacctttcagtcctgaagtat-a--agagacagggagt-aag-gaatatcact--ggaggacttcaggaaaa--------------------------------------gtaAACTGGAACA--CTAGCAGTTTAAAATAACAGCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9110753 111 -   9889416 caacaagtctaccttgcagtcctgaagtgt-a--agagacagggagt-aag-gaataccacttcggaggacttcaggaaaa--------------------------------------gtaAACTGGAACA--CCAGCAGTTTAAAATAACAGCT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24822477 145 -  38779656 c-gcaccaccatct-gcagttctgaggcgt-a--ggagagagggaag-aagaaaacagcactcgcgagcacttggaggaaa---aagactccttggaaaagacctaagttcccgtgaaggtgaagagccaga--acagctctttaaaacagaagct
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17994996 103 +  39895921 AAGCAAAACCATGTAGCTATCCTCAAGTTT-A--TGAGATAGGGAAT-ATGAGAATACTATTT-GGTAGACATTAAGGGAA-ATTGAATTCTTTGGA-----------------------------------------------AAAATAAAAGCT
i canFam3.chr31             C 0 I 47
e dasNov3.JH578070            2282713 1321 +   3081153 I

a score=62232.000000
s hg38.chr21_GL383579v2_alt     35977 5 +    201197 TAAgg
s panTro5.chr21               8658349 5 +  33445071 TAAgg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193866 5 +  46275980 TAAgg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176425 5 -  13858734 TAAgg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222540 5 +  32716333 TAAga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615317 5 - 185818997 TAAgg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252292 5 - 192294377 TAAgg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876177 5 -  30496662 TAAgg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399566 5 +  21915920 TAAgg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901236 5 -  90373283 TAAgg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404103 5 +   7543664 TAAgg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170437 5 -  13750039 TAAgg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26445251 5 +  50472720 TAAgg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8651035 5 +  13128814 TAAgg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872295 5 -  14377064 TAAgg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9110864 5 -   9889416 TAAgg
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24822622 5 -  38779656 taagg
i otoGar3.GL873528          C 0 I 789
e dasNov3.JH578070            2282713 1321 +   3081153 I
e canFam3.chr31              17995099 47 +  39895921 I

a score=303908.000000
s hg38.chr21_GL383579v2_alt     35982 32 +    201197 ccaggcgcagtggctcacgcctgtaatcccag
s panTro5.chr21               8658354 32 +  33445071 ccaggcgcggtggctcacgcctgtaatcccag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193871 32 +  46275980 ccaggcgcggtggctcacgcctgtaatcccag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176430 32 -  13858734 ccaggcgcggtggctcacgcctgtaatcccag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222545 32 +  32716333 ccaggtgcggtggctcacgtctgtaatcccag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615322 32 - 185818997 ccaggagcggtggctcacacttgtaatcccag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252297 32 - 192294377 ccaggagcggtggctcacacttgtaatcccag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876182 32 -  30496662 ccaggagcggtggctcacacttgtaatcccag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399571 32 +  21915920 ccaggggcagtggctcacgcctgtaatcccag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901241 32 -  90373283 ccaggagcggtggctcacgcttgtaatcccag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404108 32 +   7543664 ccaggtgcagtggctcacgcctgtactcctag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170442 32 -  13750039 ccaggcgcggtggctcacgcctgtaatcccag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26445256 30 +  50472720 ccaggcatggtggcttacacctgta--tccag
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8651040 32 +  13128814 ccaggcacagtggctcacacctgtaatcccag
i saiBol1.JH378168          C 0 I 1
s cebCap1.NW_016107322v1     13872300 32 -  14377064 ccaggcacagcggctcacacctgcaatcccag
i cebCap1.NW_016107322v1    C 0 I 15
s aotNan1.NW_018487195v1      9110869 32 -   9889416 ccaggcacggtggctcacacctgtaatcccag
i aotNan1.NW_018487195v1    C 0 I 14
e dasNov3.JH578070            2282713 1321 +   3081153 I
e canFam3.chr31              17995099 47 +  39895921 I
e otoGar3.GL873528           24822627 789 -  38779656 I

a score=16857.000000
s hg38.chr21_GL383579v2_alt     36014 17 +    201197 gccgccgtgg-------cgcgggg
s panTro5.chr21               8658386 14 +  33445071 ---gccgtgg-------cgcaggg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193903 14 +  46275980 ---gccgtgg-------cgcaggg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176462 14 -  13858734 ---gccgtgg-------cgcaggg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222577 14 +  32716333 ---gacgtgg-------cacgggg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615354 16 - 185818997 gccgccttgg-------ag-aggg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252329 16 - 192294377 gccgccttgg-------ag-aggg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876214 16 -  30496662 gccgccttgg-------ag-aggg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399603 16 +  21915920 gctgccgtgg-------ag-aggg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901273 13 -  90373283 gccgctgtgg-------ag-a---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404140 16 +   7543664 gccgccgtgg-------ag-aggg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170474 16 -  13750039 gccgccgtgg-------ag-aggg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26445286 17 +  50472720 actttcttaggccgagg-------
i calJac3.chr21             C 0 I 5702
s saiBol1.JH378168            8651073 10 +  13128814 actttcagag--------------
i saiBol1.JH378168          I 1 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e cebCap1.NW_016107322v1     13872332 15 -  14377064 I
e canFam3.chr31              17995099 47 +  39895921 I
e aotNan1.NW_018487195v1      9110901 14 -   9889416 I
e otoGar3.GL873528           24822627 789 -  38779656 I

a score=-14097.000000
s hg38.chr21_GL383579v2_alt     36031  6 +    201197 gcttg-----t--
s panTro5.chr21               8658400  5 +  33445071 gg-tg-----g--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193917  6 +  46275980 ggtgg-----g--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176476  4 -  13858734 ggt-------g--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222591 11 +  32716333 ggcagggggtg--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615370  6 - 185818997 ggtgc-----g--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252345  6 - 192294377 ggtgt-----g--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876230  6 -  30496662 ggtgc-----g--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399619  6 +  21915920 agtgc-----g--
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3404156  6 +   7543664 agtgc-----g--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170490  5 -  13750039 ggtgt--------
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8651083  3 +  13128814 ----------gcc
i saiBol1.JH378168          C 0 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e cebCap1.NW_016107322v1     13872332 15 -  14377064 I
e canFam3.chr31              17995099 47 +  39895921 I
e aotNan1.NW_018487195v1      9110901 14 -   9889416 I
e calJac3.chr21              26445303 5702 +  50472720 I
e otoGar3.GL873528           24822627 789 -  38779656 I
e chlSab2.chr2               19901286  0 -  90373283 C

a score=9100.000000
s hg38.chr21_GL383579v2_alt     36037 1 +    201197 g
s panTro5.chr21               8658405 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193923 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176480 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222602 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615376 1 - 185818997 g
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252351 1 - 192294377 g
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876236 1 -  30496662 g
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399625 1 +  21915920 g
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901286 1 -  90373283 g
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404162 1 +   7543664 g
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170495 1 -  13750039 g
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8651086 1 +  13128814 g
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9110915 1 -   9889416 g
i aotNan1.NW_018487195v1    I 14 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e cebCap1.NW_016107322v1     13872332 15 -  14377064 I
e canFam3.chr31              17995099 47 +  39895921 I
e calJac3.chr21              26445303 5702 +  50472720 I
e otoGar3.GL873528           24822627 789 -  38779656 I

a score=1954935.000000
s hg38.chr21_GL383579v2_alt     36038 255 +    201197 gggggggtggt-gtcacctgagttcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctact-aaaaaaatacaaaaattagccgggcgtggtggcgggcgcctataatcccagccactcaggaggatgaggcagaagaatcacttgaactcgggaggcagaggttgcagcgagcggagatcgtgccactgcactccagcctgggagacagagcgagattatgtctcaaaaatacataaataaataaa
s panTro5.chr21               8658406 255 +  33445071 gggggggtggt-gtcacctatgttcaggagtttgagaccagcctagtcaacatgttgaaaccc--tctctact-aaaaaaatacagaaattagccgggcgtggtggcgggcgcctataatcccagccactcaggaggatgaggcagaagaatcacttgaactcgggaggcagaggttgcagcaagcggagatcgtgccactgcactccagcctgggagacagagggagattatgtctcaaaaatacataaataaataaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22193924 255 +  46275980 gggggggtggt-gtcacctatgttcaggagtttgagaccagcctagtcaacatgttgaaaccc--tctctact-aaaaaaatacaaaaattagccgagcgtggtggcgggcgcctataatcccagccactcaggaggatgaggcagaagaatcacttgaactcgggaggcagaggttgcagcaagcggagatcgtgccactgcactccagcctgggagacagagcgagattatgtctcaaaaatacataaataaataaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176481 255 -  13858734 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctact-aaaaaaatacaaaaattagccgggcgtggtggcgggcgcctataatcccagccactcaggaggatgaggcagaagaatcacttgaactcgggaggcagaggttgcagcaagcggagatcgtgccactgcactccagcctgggagacagagcgagattatgtctcaaaaatacataaataaataaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222603 251 +  32716333 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctact-aaaataatacaaaaattagctgggcgtggtggcgggcgcctgtaatcccagccactcaggaggatgaggcagaagaatcacttgaacctgggaggcagaggttgcagcgagcggagatcatgccactgcactccagcctgggagacagagcgagattgtatctcaaaaaTAC----ATAAATAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615377 251 - 185818997 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctacc-aaaaaaatacaaaaattagcctgatgtggtggtgggcacctgtaatcccagccactccagaggatgaggcagaagaatcacttgagcccgggagacagagggtgcagcgagcggaggtcgcgccgctgtacttcagcctgggagacagagcgagac----tctcaaaaatacataaataaataaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252352 251 - 192294377 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctacc-aaaaaaatacaaaaattagcctgatgtggtggtgggcacctgtaatcccagccactccagaggatgaggcagaagaatcacttgagcccgggagacagagggtgcagcgagcggaggtcgcgccgctgtacttcagcctgggagacagagcgagac----tctcaaaaatacataaataaataaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876237 251 -  30496662 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatattgaaaccc--tctctacc-aaaaaaatacaaaaattagcctgatgtggtggtgggcacctgtaatcccagccactccagaggatgaggcagaagaatcacttgagcccgggagacagagggtgcagcgagcggaggtcgcgccgctgtacttcagcctgggagacagagcgagac----tctcaaaaatacataaataaataaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399626 251 +  21915920 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tttctacc-aaaaaaatacaaaaattagccggacgtggtggtgggcgcctgtaatcccagccactccggaggatgaggcagaagaatcacttgagcccgggagagagaggttggagcgagcggaggtcgtgcccctgcgctacaacctgggagacagagcaagac----tcTCAAaaatacataaataaataaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901287 251 -  90373283 ggggtggtggc-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctacc-gaaaaaatacaaaaattagccggacgtggtggtgggcgcttgtaatcccagccactccagaggatgaggcagaagaatcactcaagcccgggagacagaggttgcagcaagtggaggtcgggccgctatgcttcagcctgggagacagagcaagac----tcTCAAaaatacatacataaataaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404163 252 +   7543664 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaaccc--tctctaccaaaaaaaatacaaaaattagccggacgtggtggtgggcgcctgtaatcccagccactccagaggatgaggcagaagaatcacttgagcccgggagagagaggttgcagcgagtggagttcgcgcccctgcactacaacctgggagacagagcgagac----tcTCAAaaatacataaataaataaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170496 251 -  13750039 ggggtggtggt-gtcacctgaggtcaggagtttgagaccagcctggtcaacatgttgaaagcc--tctctacc-aaaaaaatacaaaaattagccagacatggtggtgggcacctgtagtcccagccactctggagggtgaggcagaagaatcacttgagcccgggagacagaggttgcagcgagtggaggtcgtgcccctgcactccagcctgggaggcagagcaagac----tctcaaaaatacataaataaataaa
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8651087 249 +  13128814 -aggcggggggaatcacctgaggtcaggagtttgagaccagcatgatgaaaatactgaaaccctgtctctact-aaaaatatacaaaaattagctgggcctggtggcaggtgcctgtaatcccaggtactcaggaggctgaggcataagaatcacccgaactcagcaggtagaggttggagggagcagagatcacgccactgcattccagcctgggaaacagagtgagacggtatctcaaaa--------ataaataaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872347 248 -  14377064 -aggtgggggt-atcacctgaggtcaggaatttgcaaccagcatgatcaaaatactgaaaccctgtctctact-aaaaatatacaaaaattagctgggcctggtggcaggtgcctgtaatcccaggaactcaggaggctgaggcgtaagaatcgcttgaactaggcaggtagaggttggagggagcagagatcacgccactgcattccagcctgggaaacagagcgagatggtatctcaaaa--------ataaataaa
i cebCap1.NW_016107322v1    I 15 C 0
s aotNan1.NW_018487195v1      9110916 249 -   9889416 -aggcggggagaatcacctgaggtcaggagtttgagaccagcatgatgataagactgaaaccctgtctctact-aaaaatatacaaaaattagctgggcctggtggcaggtgcctgtaatcccaggtactcaggaggctgaggcataagaatagcttgaacctggcaggtagaggttggagggagcagagatcacgccactgcattccagcctgggaaacagagcgagatggtatctcaaaa--------ataaataaa
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e canFam3.chr31              17995099  47 +  39895921 I
e calJac3.chr21              26445303 5702 +  50472720 I
e otoGar3.GL873528           24822627 789 -  38779656 I

a score=308830.000000
s hg38.chr21_GL383579v2_alt     36293 38 +    201197 ta-------------------aaATG---------ACAATTTAAGATATTACCGTAATTCCTGGAT
s panTro5.chr21               8658661 38 +  33445071 ta-------------------aaATG---------ACAGTTTAAGATATTACCGTAATTCCTGGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22194179 38 +  46275980 ta-------------------aaATG---------ACAGTTTAAGATATTACCGTAATTCCTGGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176736 38 -  13858734 ta-------------------aaATG---------ACAGGTTAAGATATTACCGTAATTCCTGGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222854 38 +  32716333 TA-------------------AAATG---------GCAGTTTAAGATATTACCGTATTTCCTGGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615628 38 - 185818997 ta-------------------aaATG---------ACAGTTTAAGATATTACCATATTTCCTAGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252603 38 - 192294377 ta-------------------aaATG---------ACAGTTTAAGATATTACCATATTTCCTAGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876488 38 -  30496662 ta-------------------aaATG---------ACAGTTTAAGATATTACCATATTTCCTAGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399877 41 +  21915920 taaat----------------aaata---------aCAGCTTAAGATATTACCATATTTCCTAGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901538 66 -  90373283 taaataaataaataaataaataaataaataaaATGACAGTTTAAGATATTACCATATTTCCTAGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404415 57 +   7543664 taaataaataaataaaCAAACAAACA---------ACAGCTTAAGATATTACCATATTTCCTAGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170747 42 -  13750039 taaata---------------aaGTG---------ACAGCTTAAGATATTACCATATTTCCTAGAT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8651336 38 +  13128814 ta-------------------aaaTA---------ACAGCTTAAGATATGACTGTATTTCCTGGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872595 38 -  14377064 ta-------------------aaaTA---------ACAGCTTAAGATATTACTGTATTTCCTTGAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9111165 38 -   9889416 ta-------------------aaaTA---------ACAGCTTAAGATATTACTGTATTTCCTGGAT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17995146 38 +  39895921 TA-------------------AAATA---------ACAACTTATGATATTACTATATTTCCTGAAT
i canFam3.chr31             I 47 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e calJac3.chr21              26445303 5702 +  50472720 I
e otoGar3.GL873528           24822627 789 -  38779656 I

a score=946923.000000
s hg38.chr21_GL383579v2_alt     36331  98 +    201197 AAGAAGCACCAGTTACAAAGG--ACAGTAAAAGAATTCTCGCTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAAGTG---
s panTro5.chr21               8658699  98 +  33445071 AAGAAGCACCAGTTACAAAGG--ACAGTAAAAGAATTCTCGCTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAAGTG---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22194217  98 +  46275980 AAGAAGCACCAGTTACAAAGG--ACAGTAAAAGAATTCTCGCTGTAGGAAGATGGGGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAAGTG---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176774  98 -  13858734 AAGAAGCACCAGTTACAAAGG--ACAGTAAAAGAATTCTCGCTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAATAAGTG---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222892 100 +  32716333 AAGAAGCACCAGTTACAAAGGACACAGTAAAAGAATTCTCGCTGTAGGTAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAATAAGTG---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615666 100 - 185818997 AAGAAGCACCAGTTACGAAGGCCACAGTTAAAGAATTCCCACTGTAGGAAGATGGAAATAAAATGAAGGAACAACTAGAAACGGGAGAAGATAGTAACTG---
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252641 100 - 192294377 AAGAAGCACCAGTTACGAAGGCCACAGTTAAAGAATTCCCACTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAACGGGAGAAGATAGTAACTG---
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876526 100 -  30496662 AAGAAGCACCAGTTACGAAGGCCACAGTTAAAGAATTCCCACTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAACGGGAGAAGATAGTAACTG---
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13399918 100 +  21915920 AAGAAGCACCAGTTACGAAGGCCACAGTTAAAGAATTCCCACCGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAAGTG---
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901604 100 -  90373283 AAGAAGCACCAGTTATGAAGGTCACAGTTAAAGAATTCCCACTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAACTG---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404472 100 +   7543664 AATAAGCACCAGTTACGAAGGCCACAGTTAAAGAATTCTCAGTGTAGGAAGATGGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAAGTG---
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170789 100 -  13750039 AAGAAGCACCAGTTATGAAGGCCACAGTTAAAGAATTCCCACTGCAGGAAGATAGAGATAAAATGAAGGAACAACTAGAAATGGGAGAAGATAGTAAATG---
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26451005 100 +  50472720 AAGAAACACTAGTTGCAAAGACTACAGAAATAGAATTCCCACTGTGGGGAGATGGAGAGTAAATGAAGGAACAACTAGAAATGGGACAAGATAATAAGTG---
i calJac3.chr21             I 5702 C 0
s saiBol1.JH378168            8651374 100 +  13128814 AAGAAACACCAGTTGCAAAGACTACAGTAATAGAATTCCCGCTCTGGGGAGATGGAGATTAAATGAAGGAACAAGTAGAAAGGGGACAAGATAATAAGTG---
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872633 100 -  14377064 AAGAAACACCAGTTGCAAAGACTACAGTAATGGAATTCCTGCTGTGGGGAGATGGAGATTAAATGAAGGAACAACTAGAAATGGGACAAGATAATAAGTG---
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9111203 100 -   9889416 AAGAAACACCAGTTGCAAAGACTACAGCAATAGAATTCCTGCTGTGGGGAGATGGAGATTAAATGAAGGAACAACTAGAAATGGGACAAGATAATAAGTG---
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17995184  93 +  39895921 ATGGCATACT-GTTCCAAAAGCCACAATGAAGGAACT---------AGGTTTTGGAGAAAAGATGAGAAAGAAACTAGAAATGGGTAAAGATTATAATAATAT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e otoGar3.GL873528           24822627 789 -  38779656 I

a score=6665866.000000
s hg38.chr21_GL383579v2_alt     36429 674 +    201197  
s panTro5.chr21               8658797 676 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22194315 676 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8176872 675 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9222992 672 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160615766 694 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167252741 694 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4876626 694 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13400018 688 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19901704 694 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3404572 694 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5170889 693 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26451105 698 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8651474 688 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13872733 692 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9111303 701 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24823416 674 -  38779656  
i otoGar3.GL873528          I 789 I 4
s canFam3.chr31              17995277 640 +  39895921  
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I

a score=1938586.000000
s hg38.chr21_GL383579v2_alt     37103 192 +    201197 AGCCTTTTTGTGGCTTCTGCTCGTTGAGCTGGGATTCAAGTGTTCAAGTCATCCAACCTC------ATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTGTTTCTTCTGATGCCCAAATAGCAGATCTATGCATACAGTGCAGTGTTAACTGATTTAGGTAGCTTTCCATCTCAGCATATAAGTATCAC
s panTro5.chr21               8659473 192 +  33445071 AGCCTTTTTGTGGCTTCTGCTAGTTGAGCTGGGATTCAAGTGTTCAAGTCATCCAACCTC------ATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTGTTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTTAGGTAGCTTTCCATCTCAGCATGTAAGTATCAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22194991 192 +  46275980 AGCCTTTTTGTGGCTTCTGCTGGTTGAGCTGGGATTCAAGTGTTCAAGTCATCCAACCTC------ATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTGTTTCTTCTGATGCCCAAATAGCAGATCTATGCCTATAGTGCAGTGTTAACTGATTTAGGTAGCTTTCCATCTCAGCATGTAAGTATCAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8177547 191 -  13858734 AGCCTTTTTGTGGCTTCTGCTAGTT-AGCTGGGATTCAAGTGTTCAAGTCATCCAACCTC------ATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTGTTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTTAGGTAGCTTTCCATCTCAGCATATAAGTATCAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9223664 194 +  32716333 AGCCTTTTTGTGGCTTCTGCTAGTTGAGCTTGGATTCAAGTGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTACTGCCTATGAAAGATATGTTATTATTTCTTCTGATGCCCGAATAGCAGATCTATGCATATAGTGCAGTGTTAACTAATTCAGGTAGCTTTCCATCTCAGCATATTAGTATTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160616460 194 - 185818997 AGCCTTTTTGTGACTTCTGCTAGTTGAGCTTGGATTCAAGCGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTATTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAGCATATTAGTATCAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167253435 194 - 192294377 AGCCTTTTTGTGACTTCTGCTAGTTGAGCTTGGATTCAAGCGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTATTTCTTCTGATGCCCAAATAGCAGATCTATGCACATAGTGCAGTGTTAATTGATTCAGGTAGCTTTCCATCTCAGCATATTAGTATCAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4877320 194 -  30496662 AGCCTTTTTGTGACTTCTGCTAGTTGAGCTTGGATTCAAGCGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTATTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAGCATATTAGTATCAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13400706 194 +  21915920 AGCCTTTTTGGGACTTCTGCTAGTTGAGCTTGGATTCAAGCGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGGTATTATTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAGCATATTAGTATCAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19902398 194 -  90373283 AGCCTTTTTGTGACTTCTGCTAGTTGAGCTTGGATTCAAGCGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTATTTCTTCTGATGCCCAAATAGCAGATCTATGCATACAGTGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAGCATATTAGTATCAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3405266 194 +   7543664 AGCCTTTTTGGGACTTCTGCTAGTTGAGCTTGGATTCAAGCGTTCAAGTCATCCAACCTC----TTATTTTCTCTTTCCATGTTATTGCCTATGAAAGATATGTTATTGTTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAGCATATTAGTATCAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5171582 194 -  13750039 AGTCTTTTTGTGACTTCTGCTAGTTGAGCTTGAATTCAAGCGTTCAAGTTATCCAACCTC----TTATTTTCTGTTTCCATGTTCTTGCCTATGAAAGATATGTTATTATTTCTTCTGATGCCCAAATAGCAGATCTATGCATATAGTGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAGCACATTAGTATCAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26451803 193 +  50472720 AGCATTTTTGTGGATCCTGCTAGTTGAGCTTAGATTCAAGTGTTCAAGTCATCCAACCTC----TTATTCTCTCTTTCCCTTGTATTGCCTATGAAAGATATGTGATTATTTCTTCTGATGCCT-AATTGCAGATCTATCTTTATAACGCAGTGTTAACTGAGTCAGGTTGCTTTCAATCTCAACATATTAGTATCAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8652162 193 +  13128814 AGCATTTTTGTGGCTCCTGCTAGTTGAGCTTGGATTCAGGTGTTCAAGTCATCCAACCTC----TTACTCTCTCTTTCCCTTGTATTGCCTATGAAAGATATGTGATTATTTCTTCTGATGCCT-AATTGCAGATCTGGCCATGTAATGCAGTGTTACCTGATGCAGGTAGCTTTCCATCTCAACATATTAATATCAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13873425 187 -  14377064 AGCGTTTTTGTGGCTCCTGCTAGTTGAGCTTGGATTTAGGTGTTC--GTCATCCAACCTC----TTACTCTC----TCCGTTGTATTGCCTGTGAATGATATGTGATTATTTCTTCTGATGCCT-AATTGCAGATCTGGCCATGTAATGCAGTGTTAACTGATTCAGGTAGCTTTCCATCTCAACATATTAGCGTCAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9112004 193 -   9889416 AGTGTTTTTGTGGCTCCTGCTAGTTGAGCTTGGATTCAAGTGTTCAAGTCATCCAACCTC----TTACTCTCTCTTTCCCTTGCATTGTCTATGAAAGATATATGATTATTTCTTCTGACGCCT-AATTGCAGATCTATCCATATAATGCAGTGTTAACGGATTCAGGTAGCTTTCCATCTCAACATATTAGTATCAC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17995917 171 +  39895921 AGCCTTATGGTGATTTCTGTTGGTTGAGCT--GAGTCAAATGTTCAAGGCACTCAACCTTTAGATTGTTTTCTCTTTCCATATCCCTTCC--------------AGTTATTTTTTCTGATACCT-AATTGTAGATCCACCCATATTACTCAGCATTAACTAA----------TTTCTATCTCAATGTATTAGTATCAC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2282713 1321 +   3081153 I
e otoGar3.GL873528           24824090   4 -  38779656 I

a score=3359217.000000
s hg38.chr21_GL383579v2_alt     37295 288 +    201197 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCCATGAACTCTGTCCATATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATAAAAGGGAAAGGATCAAAATC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGGTAGAGGTCAGAACACTTATTTCAATTGAACAAAGTCTACATTTTCGGAATGCTGCTATAAACCAGATGTCATATCAGTAACTGT
s panTro5.chr21               8659665 288 +  33445071 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCCATGAACTCTGTCCATATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATAAAAGTGAAAGGATCAAAATC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGGTAGAGGTCAGAACACTTATTTCAATTGAACAAAGTCTACATTTTTGGAATGCTCCTATAAACCAGATGTCATATCAGTAACTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22195183 288 +  46275980 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCCATGAACTCTGTCCATATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATAAAAGTGAAAGGATCAAAATC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGGTAGAGGTCAGAACACTTATTTCAATTGAACAAAGTCTACATTTTTGGAATGCTCCTATAAACCAGATGTCATATCAGTAACTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8177738 288 -  13858734 TTCAGGGAGTAGGAGAATATGGAGCTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCCATGAACTCTGTCCATATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATAAAAGTGAAAGGATCAAAATC---GTGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGGTAGAGGTCAGAACACTTATTTCAATTGAACAAAGTCTACATTTTTGGAATGCTGCTATAAACCAGATGTCATATCAGTAACTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9223858 288 +  32716333 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACATTATAGCTGTGAACTCTGTCCATATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATAAAAGTGAAAGGATCAAAATC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGGTAGAGGTCAGAACACTTATTTCAATTGAACAAAGTCTACATTTTTGGAATGCTGCTATAAACCAGATGTCGTATCAGTAACTGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160616654 288 - 185818997 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGACGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCTGTGAACTCTGTCGACATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTTTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167253629 288 - 192294377 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGACGGTACATGTGTGTTAAATTGATATCGTTCTGGTAATGGCACACTATAGCTGTGAACTCTGTTGACATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4877514 281 -  30496662 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGACGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCTGTGAACTCTGTCGACATTACCCT-CTTCCATCAAGAATGGATGA-------CACAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13400900 288 +  21915920 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGACGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCTGTGAACTCCGTTGACATTACCCT-CTTCCATCAAGAATGGATGACACTATTCAGAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19902592 288 -  90373283 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTTATATTGTTCTGGTAATGGCACACTATAGCTGTGAACTCTGTCGACATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTCTCTTGGAAAAGGCAGGATAGAGGTTAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3405460 288 +   7543664 TTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTATAGCTGTGAACTCTGTCGACATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5171776 288 -  13750039 TTCAGGGAGTAGGAGAATATGGAGCTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTGTAGCTGTGAACTCTGTCGACATTACCCT-CTTCCATCAAGAATGGATGACACTATTCACAGACGAAAGTGAAAGGATCAAAGTC---ATGGTATATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGAGCAAAGTCTACATTTTTGGAACACTGCTATAAGTCAGATGTCATATCAGTAACTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26451996 287 +  50472720 CTCAGGAAGTAGGAGAATATGGAGTTCTT------TTTGATGATACGTGTGTGATAAATTGATATTGTTCCGGTAATGGCACACTGTAGCTATGAACTCTGTCCATATTACCTT-CTTCCATCAAGAACGGATAACACTATTCACAGATGAAAGTGAAAGGATCAAAGTC---ATGATATATTTGGACCCAGTAGTCTCTTGAAAAA-GCAGAATAGAGGTCAGAAGACTTATTTCAATTGACCAAAGTCTACATTTTTGAAGTGCTGCTAGAAGTCAGATGTCATATCAGTGACTGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8652355 288 +  13128814 CTCAGAAAGTAGGAGAATATGGAGTTCTT------TTTGATGGTACATGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACTGTAGCTGTGAACTCTGTCCATATTACCTT-CTTCCATCGAGAATGGATAACACTATTCACAGATGAAAGTGAAGGGATCAAAGTC---ATGATATATTTGGACCCAGCAGCCTCTTGAAAAAGGCACGTTAGAGGTCAGAACACTTATTTCAATTGACCAAAGTCTACATTTTTGGAGTGCTGCTATAAGTCAGATGTCATATCAGTAACTGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13873612 288 -  14377064 CTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGGTGCGTGTGTGTTAAATTGATATTGTTCTGGTAATGGCACACCATAGCTGTGAACTCTGTCCATATTACCTT-CTTCCATCGAGAATGGATGACACTATTCACAGATGAAAGTGAAAAGATCAAAGTC---ATGATATATTTGGACCCAGCAGTCTCTTGAAAAAGGCAGGATAGAGGTCAGAACACTTATTTCAATTGACCAAAGTCTACATTTTTGTAGTGCTGCTATAAGTCAGATGTCATATCAGTAACTGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9112197 288 -   9889416 CTCAGGGAGTAGGAGAATATGGAGTTCTT------TTTGATGATACATGTGTGATAAATTGATATTGTTCTGGTAATGGCACACTGTAGCTGTGAACTCTGTCCATATTACCTT-CTTCCATCAAGAATGGATAACACTATTCACAGATGAAAGTGAAGGGATCAAAGTC---GTGATGTATTTGGACCCAGTAGTCTCTTGAAAAAGGCAGAATAGAGGTCAGAACACTTATTTCAATGGACCAAAGTCTACATTTTTGGAGTGCTGCTATAAGTCAGATGTCACATCAGTAACTGT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17996088 292 +  39895921 TTTGGGGACTTAAAGACTGGAGAGTTCTT------TTTAGTGATATGTATGTGTCACATTGAGATTATTCTAACCATTGCAGCCTATAGCTATGAACTCTATCCATATTTTTTTACTATTATTAAGAATTAATGACATTATTCAGAGTAGAAATTGAAAGGATCAAAGTCATGATGATACATTTGGTCCCAATAGTCTCTTGGAGGATGTGGGATAGAGGTCAGAATACCTCTTTCAATTGATCAAAATCTACCTATATAGAATGTTCTACTAACCCAGATGTACTATCAATAATTGC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2284034 279 +   3081153 TTCAGGGACTGAGAATCTGTGTAGTTATTTATTTATTTAACAGCAC---------AGATTGAGATTGTTCTAGTAATGGCAAACTAAAGTTGTGAAATATGTCCATATTTTTTA-CTTCC------AATTAATAATATTCTTCCTAGTAGGAGCTGAAGGGATCAAAGTC---ATAATAGATATGGTCCTAATAGTTTCTTTGAGGAGATAGAATTGAGTTTGGAGCACTTCTTTCAATTCACAAAAATTTACATCCATTGAATGCTATTATAAGTGAGACACAATATCAGGAATTGC
i dasNov3.JH578070          I 1321 C 0
e otoGar3.GL873528           24824090   4 -  38779656 I

a score=1394026.000000
s hg38.chr21_GL383579v2_alt     37583 125 +    201197 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGAGATATTCGTATTAAAGGAAATATTTAGAAACAT-ACGCCTGAGATACTATTGTCTTTAGTCTTAAAAAATTGCTTAAGTAAAATTA
s panTro5.chr21               8659953 125 +  33445071 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGAGATATTCGTATTAAAGGAAATATTTAGAAACAT-ATGCCTGAGATACTATTGTCTTTAGTCTTAAAAAATTGCTTCAGTAAAATTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22195471 125 +  46275980 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGAGATATTCGTATTAAAGGAAATATTTAGAAACAT-ATGCCTGAGATACTATTGTCATTAGTCTTAAAAAATTGCTTCAGTAAAATTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8178026 125 -  13858734 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGAGATATTCATATTAAAGGAAATATTTAGAAACAT-ATGCCTGAGATACTATTGTCTTTAGTCTTAAAAAATTGCTTAAGTAAAATTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9224146 125 +  32716333 CTTGAAAGAAGTGTGGAAATCTATAACAGCTATGAAAAGAGATATTCGTATTAAAGGAAATATTTAGAAACAT-ATTCCTGAGATACTGTTGTCTTTAGTCTTGAAAAATTGCTTAAGTAAAATTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160616942 125 - 185818997 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-GTGCCTGAGATACTGTTGTCTTTAGTTTTGAAAAATTGCTGAAGTAAAATTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167253917 125 - 192294377 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-GTGCCTGAGATACTGTTGTCTTTAGTTTTGAAAAATTGCTGAAGTAAAATTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4877795 125 -  30496662 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-GTGCCTGAGATACTGTTGTCTTTAGTTTTGAAAAATTTCTGAAGTAAAATTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13401188 125 +  21915920 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-GTGCCTGAGATACTGTTGTCTTTAGTTTTGAAAAATTGCTGAAGTAAAATTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19902880 125 -  90373283 CTTGAAAGAAGTGTGGAAATGTATAACAGCTACGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-GTGCCTGAGATACTGTTGTCTTTAGTCTTGAAAAAATGCTGAAGTAAAATTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3405748 125 +   7543664 CTTGAAAGAAGTGTGGAAATGTATAACAGCTATGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-GTGCCTGAGATACTGTTGTCTTTAGTCTTGAAAAATTGCTGAAGTAAAATTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5172064 125 -  13750039 CTTGAAAGAAGGGTGGAAATGTATAACAGCTATGAAAAGGGACATTGGTATTAAAGGAAATATTTAGAAACAT-ATGCCTGAGATACTGTTGTCTTTAGTCTTGAAAAATTGCTGAAGTAAAATTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26452283 119 +  50472720 CCTGAAAGAAGTGTGGAAATGTGTAACAGCTGTG-AAAAGGATACTATTATCACAGGAAATGCTTAGAAACAT-ACGCCTGAGTTACTGTTGTAGTTAG-----AAAAATTGCTGAAGTAAAATTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8652643 120 +  13128814 TCTGAAAGAAGTGTGGAAATGTGTGACAGCTGTGCAAAGGGACATTAGTATAAAAGGAAATGTTTAGAAAAAT-ATACCTGAGCTACTGTTGTAATTAG-----AAAAATTGCTGAAGTAAAATTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13873900 118 -  14377064 CCTGAAAGAAGTGTGGAAATGTGTGACAGCTGTGAAAAGGGATGATAGTATAAAAGGAAATGTTTAGAAACAT-ATGCCTGAGATACTCGTGTAGTTAG-----AAAAATTGCTGAAATAAAAT--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9112485 120 -   9889416 CCTGAAAGAAGTGTGGAAATGTGTAACAGCTGTGAAAAGGGATATTAGTATCAAAGGAAATGTTTAGAAACAT-ATGCCTGAGATACTGTTGTAGTTAG-----AAAAGTTGCTGAAGTAAAATTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24824094 125 -  38779656 CTTTGGAGAAGTTTAGAAATGTAAAACAGTCAAGAATAGAGACATTGGTATGAAAGGAAATATTTAGCCGCAT-ATACCTTAGACCTTGTTGCTTTTATTTTGCAAAAGTTGCCAAAGTAAAATTA
i otoGar3.GL873528          I 4 C 0
s canFam3.chr31              17996380 122 +  39895921 TTTAGGAAAAGTGTAGAAATATAAGACAGTCAAGAAAAAGGATATTGGTATTA---GAAGTGTCTTGAAACAT-ACGCTTGTAGCACTATTATCTTTAGTTTAGAAGAGCAGCTCACGTAAAGTTA
i canFam3.chr31             C 0 I 569
s dasNov3.JH578070            2284313 122 +   3081153 TTTGGGAGAAGTGTAAATATGTTGGGCAGCCA--AAAAAAGACATTGGTAGTAAGGGGAGTGTTTAGAAACATAACATCACAGACACTTTTAT-GTCAGACTTGAAAAGTTGCTGAAGTAAACTG-
i dasNov3.JH578070          C 0 C 0

a score=106834.000000
s hg38.chr21_GL383579v2_alt     37708 16 +    201197 AAGTAACTAACTAC--CT
s panTro5.chr21               8660078 16 +  33445071 AAGTAACTAACTAC--CT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22195596 16 +  46275980 AAGTAACTAACTAC--CT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8178151 16 -  13858734 AAGTAACTAACTAC--CT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9224271 18 +  32716333 AAGTAACTAACTACCTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160617067 16 - 185818997 AAGTAACTACCTAC--CT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167254042 16 - 192294377 AAGTAACTACCTAC--CT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4877920 16 -  30496662 AAGTAACTACCTAC--CT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13401313 16 +  21915920 AAGTAACTACCTAC--CT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19903005 16 -  90373283 AAGTAACTACCTAC--CT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3405873 16 +   7543664 AAGTAACTACCTAC--CT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5172189 16 -  13750039 CAGTAACTACCTAC--CT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26452402 12 +  50472720 AAGTAA----CTAC--CT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8652763 12 +  13128814 AAGTAA----CTAC--CT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13874018  9 -  14377064 ---TAA----CTAC--CT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9112605 12 -   9889416 AAGTAA----CTAC--CT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24824219 15 -  38779656 TA-CATCTAAGCTC--CT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2284435 16 +   3081153 AAGTGTCTAAGTGA--TT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              17996502 569 +  39895921 I

a score=1650433.000000
s hg38.chr21_GL383579v2_alt     37724 148 +    201197 ------------AAGTGAGCACA-------ATTTTGAAAGAGAGGGATC----------TCTATTG---TTATGTAATAAA----TTAAGGGAAAGCACCAAATGGGAACTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATATTGTAAGTAGAAATAAAAA-TCAATTAGTCATATTTTAAC
s panTro5.chr21               8660094 148 +  33445071 ------------AAGTGAGAACA-------ATTTTGAAAGAGAGGGGTC----------TCTATTG---TTATGTAATAAA----TTAAGGGAAAGCACCAAATGGGAACTAGAAGGTAGAAAATGTTATCGATATATTT-------GAATATTGTAAGTAGAAATAAAAA-TCAATTAGTCATATTTTATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22195612 148 +  46275980 ------------AAGTGAGAACA-------ATTTTGAAAGAGACGGGTC----------TCTATTG---TTATGTAATAAA----TTAAGGGAAAGCACCAAATGGGAACTAGAAGGTAGAAAATGTTATCGATATATTT-------GAATATTGTAAGTAGAAATAAAAA-TCAATTAGTCATATTTTATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8178167 148 -  13858734 ------------AAGTGAGCACA-------ATTTTGAAAGAGAGGGGTC----------TCTATTG---TTATGTAATAAA----TTAAGGGAAAGCACCAAATGGGAACTAGAAGGTAGAAAATGTCATCAATATATTT-------GAATATTGTAAGTAGAAATAAAAA-TCAATTAGTCATATTTTAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9224289 148 +  32716333 ------------AAGTGAGCACA-------ATTTTGAAAGAGAGGGATC----------TCTATTG---TTATGTAATAAA----TTAAGGGAAAGCACCAAATGGGAACTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATATTGTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160617083 148 - 185818997 ------------AAGTGAGCAGA-------ATTTTGAAAAAGAGGGGTC----------TCTATCG---TTACATAATAAA----TTAAGGGAAAGCACTAAATGGGAGCTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATCTTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167254058 148 - 192294377 ------------AAGTGAGCAGA-------ATTTTGAAAAAGAGGGGTC----------TCTATCG---TTACATAATAAA----TTAAGGGAAAGCACTAAATGGGAGCTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATCTTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4877936 148 -  30496662 ------------AAGTGAGCAGA-------ATTTTGAAAAAGAGGGGTC----------TCTATCG---TTACATAATAAA----TTAAGGGAAAGCACTAAATGGGAGCTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATCTTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13401329 148 +  21915920 ------------AAGTGAGCAGA-------ATTTTGAAAAAGAGGGGTC----------TCTATCG---TTACATAATAAA----TTAAGGGAAAGCACTAAATGGGAACTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATCTTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19903021 148 -  90373283 ------------AAGTGAGCAGA-------ATTTTGAAAAAGAGGAGTC----------TCTATCA---TTACATAATAAA----TTAAGGGAAAGCACTAAATGGGAACTAGAAGGTAGAAAATGTCGTCAATATATTT-------GAATATTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3405889 148 +   7543664 ------------AAGTGAGCAGA-------ATTTTGAAAAAGAGGGGTC----------TCTATCG---TTACATAATAAA----TTAAGAGAAAGCACTAAATGGGAACTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATCTTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5172205 148 -  13750039 ------------AAGTGAGCAGA-------ATTTTGAAAGAGAGGGGTC----------TCTATCG---TTACATAATAAA----TTAAGGGAAAGCACCAAATGGGAACTAGAAGGTAGAAAATGTTATCAATATATTT-------GAATATTCTAAGTAGAAATAAAAA-TCAATTAATCATATTTTAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26452414 147 +  50472720 ------------AAATGAGCACA-------ATTCTGAAAGAGAGGGATC----------TCTATTG---TTATATAATAAA----TTAAGGGAAATCACCAAATTGGAACTAGAATGTAGGAAATGTTATCAATACATTC-------AAATATTCTAAATAGAAGTAAAAA-TCAATTA-TTATATTTTAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8652775 147 +  13128814 ------------ACGTGAGCACA-------ATTCTGAAAGAGAGGGGTC----------TCTATTG---TTATATAATAAA----TTAAGGGAAATCACCAAATGGGAACTAGAAGGTAGGAAATGTTATCAATACATTT-------GAATATTCTAAATAGAAATAAAAA-TCAATTA-TCATATTCTAAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13874027 147 -  14377064 ------------ATGTGAGCACA-------ATTCTGAAAGAGAGGGGTC----------TCCATTC---TTATATAATAAA----TTAAGGGAAATCACCAAATGGGAAGTAGAAGGTAGGAAATGTTATCAATATATTT-------GAATATTCTAAATAGAAATAAAAA-TCAATTA-TCATATTTTAAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9112617 147 -   9889416 ------------AAGTGAGCACA-------ATTCTGAAAAACAGGGATC----------TCTATTG---TTATATAATAAA----TTAAGGGAAATCACCAAATGGGAACTAGAAGGTAGGAAATGTTATCAATACATTT-------GAATATTCTAAATAGAAATAAAAA-TCAATGA-TCATACTTTAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24824234 143 -  38779656 ------------AAGTGAGCACA-------ATTTTGAAAGAGAGAGCTG----------TCTATTGCTATTATGCTATGAA----CTAAGACAA---ATTGAGGGGGAAGAAGAAAGTAG-AAATATTATCTATAACTGT-------CTATATTTTAAGAAGAAATACGAA-TCAA----TCATATTTTAGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17997071 148 +  39895921 ------------AAACAAGCACA-------ATG-TGAAAGTGAGTGATC----------AATATCA---TTATACTATAAA----TTAAGGGAAAATACCAAATGGGAACTTGAAGGTAGAAAATGTTACCAGTAAATCT-------CAATATTCTAAGTAGAAATAAAAAGTTAATCTATCACATTTTAGC
i canFam3.chr31             I 569 C 0
s dasNov3.JH578070            2284451 171 +   3081153 AAACTCTTTAAATGGTAAGGACAGTACTTCATTTTCAAATAGATAGGTTCCTTGTTAAGTCTATCC---ATGTGTTCCATACTGTTTAAGGCAAAAC-CTCATTGTTAA----------------GTTTTGGATATAGTTTTTAAAAAAAGACTATGAGTAGAAACCCAAT-TTATATAGACATATTTTAAC
i dasNov3.JH578070          C 0 I 1978

a score=4584643.000000
s hg38.chr21_GL383579v2_alt     37872 448 +    201197  
s panTro5.chr21               8660242 442 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22195760 442 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8178315 446 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9224437 446 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160617231 445 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167254206 445 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4878084 445 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13401477 445 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19903169 445 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3406037 446 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5172353 436 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26452561 456 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8652922 452 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13874174 448 -  14377064  
i cebCap1.NW_016107322v1    C 0 I 180
s aotNan1.NW_018487195v1      9112764 445 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24824377 520 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17997219 461 +  39895921  
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I

a score=128058.000000
s hg38.chr21_GL383579v2_alt     38320 22 +    201197 TTGTGGTTA---TTTAAAACAATCT
s panTro5.chr21               8660684 21 +  33445071 TTGTGGTTA---TTTAAAA-AACCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196202 21 +  46275980 TTGTGGTTA---TTTAAAA-AACCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8178761 20 -  13858734 TTGT-GTTA---TTAAAAA-AACCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9224883 21 +  32716333 TTGTGGTTA---TTAAAAA-AACCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160617676 21 - 185818997 TTATGGTTA---TTTAAAA-AACCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167254651 21 - 192294377 TTATGGTTA---TTTAAAA-AACCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4878529 21 -  30496662 TTATGGTTA---TTTAAAA-AACCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13401922 21 +  21915920 TTATGGTTA---TTTTAAA-AACCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19903614 21 -  90373283 TTATGGTTA---TTTAAAA-AATCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3406483 21 +   7543664 TTATGGTTA---TTTAAAA-AACCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5172789 22 -  13750039 TTATGGTTA--TTTTAAAA-AACCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453017 24 +  50472720 GTATGGCTATTTTTTTAAA-AAAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8653374 23 +  13128814 GTATGGCTA-TTTTTAAAA-AACCC
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9113209 22 -   9889416 GTATGGCT--TTTTTAAAA-AAAAA
i aotNan1.NW_018487195v1    C 0 I 2
s otoGar3.GL873528           24824897 21 -  38779656 TTATGGTTA---TTAAAAA-AACTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17997680 20 +  39895921 TTGTTGTTA---TTAGGAA-TTCC-
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cebCap1.NW_016107322v1     13874622 180 -  14377064 I

a score=2713386.000000
s hg38.chr21_GL383579v2_alt     38342 247 +    201197 AGAGTTTAATATAGCGTAGAATGCAT-AAAAATTTTTTTCTTTCACGCTCATTATATGACTAAACAAAATTTATACA-----------------------GAACATTTCTTTAGTTCTT-TATTTTCTTTTCGTGCAATTTTCATATTTGTTTCATTGATTTGTACTGCATTTACCAAAGGATAAGTTTTTTTAGAAGTGCAAACCATTTACCATTAGTTTTGGTATCAAGAAAATTAAATCTCACCCCCTTCACTGTACTTGTATTCA--TTT
s panTro5.chr21               8660705 247 +  33445071 AGAGTTTAATATAGCATAGAATGCAT-ACAAATTTTTTTCTTTCACACTCATCATATGACTAAACAAAATTTATACA-----------------------GAACATTTCTTTAGTTCTT-TATTTTATTTTCGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCATTTACCAAAGGATAAGGTTTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGTATCAAGAAAATTAAATCTCACCCCCTTCACTGTACCTGTATTCA--TTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196223 247 +  46275980 AGAGTTTAATATAGCATAGAATGCAT-ACAAATTTTTTTCTTTCACACTCATCATATGACTAAACAAAATTTATACA-----------------------GAACATTTCTTTAGTTCTT-TATTTTATTTTCGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCATTTACCAAAGGATAAGGTTTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGTATCAAGAAAATTAAATCTCACCCCCTTCACTGTACCTGTATTCA--TTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8178781 247 -  13858734 AGAGTTTAATATAGCATAGAATGCAT-ACAAATTTTTTTCTTTTACACTCATTATATGACTAAACAAAATTTATACA-----------------------GAACATTTCTTTAGTTCTT-TATTTTCTTTTTGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCATTTACCAAAGGATAAGGTTTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGTATCAAGAAAATTAAATCTCACCCCCTTAACTGTACTTGTATTCA--TTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9224904 246 +  32716333 AGAGTTTAATATAGCATAGAATGCAT-AT-AATTTTTTTCTTTCACACTAATTGTATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTCGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCATTTACCAAAGGATAAGGTTTTTTTGAAGTACAAACCATTTACCATTAGTTTTGGTATCAAGAAAATTAAATCTCACCCCCTTCACTATACTTGTATTCA--GTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160617697 247 - 185818997 AGAGTTTAATATATCATAGAATACAC-AAAAATATTTTTCTTTTGCACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCGTTTACCAAAGGATAAGCTGTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACTGTATTTGTATTAA--TTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167254672 247 - 192294377 AGAGTTTAATATATCATAGAATACAC-AAAAATATTTTTCTTTTGCACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCGTTTACCAAAGGATAAGCTGTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACTGTGTTTGTATTAA--TTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4878550 247 -  30496662 AGAGTTTAATATATCATAGAATACAC-AAAAATATTTTTCTTTTGCACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCGTTTACCAAAGGATAAGCTGTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACTGTATTTGTATTAA--TTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13401943 247 +  21915920 AGAGTTTAATATATCATAGAATACAC-AAAAATATTTTTCTTTTGCACTCATTACATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCGTTTACCAAAGGATAAGCTGTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACAGTATTTGTATTAA--TTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19903635 248 -  90373283 AGAGTTTAATATATCATAGAATACACAAAAAATATTTTTCTTTTGCACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAGTTTTCATATTTGTTTCACTGATTTGTACTGCGTTTACCAAAGGATAAGCTGTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACTGTATTTGTATTAA--TTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3406504 247 +   7543664 AGAGTTTAATATATCATAGAATACGC-AAAAATATTTTTCTTTTGCACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAATTTTCATATTTGTTTCACTGATTTGTACTGCGTTTACCAAAGGATAAGCTGTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACTGTATTTGTATTAA--TTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5172811 247 -  13750039 AGAGTTCAATATATCATAGAAGGCAC-AAAAATATTTTTCTTTTGCACTCATTACATGACTAAACAAAATTTATACA-----------------------GAATACTTCTTTAGTTCTT-TATTTTCTTTTAGTGCAATTTTCATATTTGTTTCACTGATGTGTACTGCGTTTACCAAAGGATAAGCTCTTTTTGAAGTGCAAACCATTTACCATTAGTTTTGGAATCAAGAAAATTAAATCTCACCCCCTTCACTGTATTTGTATTAA--TTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453041 239 +  50472720 AGAGTTTAATATATGATAGAATACAC-AATAATATCTTTCTTTCACACTCATTATGTGACTAAACAAAATTTATACA-----------------------GAATATTT-TTTAGTTC------TTTATTTTAGTGCAATTTTCATATTTGTTTTACTGATTAGTACTGCATTTACCCAAGGATAAGAT-TTTTTGAAGTGCATACCATTTACCATTAGTTTTGGTAACAAGAAAATTAAATCTCA-CCCGTTCACTGTACTTGTATTCA--TTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8653397 244 +  13128814 AGAGTTTAATATATCATAGAATGCACAAAAAATATCTTTCTTTCACACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTATTTTAGTGCAATTTTCATATTTGTTTCACTGAT---TACTGCATTTACCCAAGGATAAGGT-TTTTTGAAGTGCATACCATTTACCATTAGTTTTGGTAACAAGAAAATTAAATCTCATCCCCTTCACTGTACTTGTATTCA--TTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13874802 245 -  14377064 AGAGTTTAATATATCATAGAATGCAC-AAAAATAGCTTTCTTTCACACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTATTTTAGTGCAATTTTCATATTTGTTTCACTGAT---TACTGCATTTACCCAAGGATAAGGT-TTTTTGAAGTGCATACCATTTACCATTAGTTTTGGTAACAAGAAAATTAAATCTCACCCCCTTCATTGTACTTGTATTCATTTTT
i cebCap1.NW_016107322v1    I 180 C 0
s aotNan1.NW_018487195v1      9113233 222 -   9889416 AGAGTTTAATGTATCATAGAATGCAC-AAAAATATATTTCTTTCACACTCATTATATGACTAAACAAAATTTATACA-----------------------GAATATTTCTTTAGTTCTT-TATTTTATTTTAGTGCAATTTTCATATTTGTTTCACTGAT---TACTGAATTTACCCAAGGATAAGGT-TTTTGA---------------------AGTTTTGGTAACAAGAAAATTACATCTCACCCCCTTCACTGTACTTGTATTCA--TTT
i aotNan1.NW_018487195v1    I 2 C 0
s otoGar3.GL873528           24824918 248 -  38779656 AGAGTTCAAAATATAATAGAACGTAC-ACAAATATTTTTGCTTCACAGTCATTATCTGAATAAACAAAAATTATACA-----------------------GAATTTGTTTTTCGTTCTT-ACTTTTCCTTCAGTGCAATTTTCATATTCGTTCCACTAATTAGTATTGCTTTTAGCAGAAGATAAGGA-TTTTTGAACTACAAACCACTTACCATTAGCTTTGACAACAAGAAATGTAAATGTTACTAATGTTACTATATTTGCATACATTTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17997700 270 +  39895921 AGAGTTCAATATATCAGAGACTATAC-AAAAATATTCTTCCTTCACAGTCATAATTTGACtaaataaaatttattcaaaaaaataaaaaaaatttatCCTGAAAATTTCTTTAGTTCTTATATTTTCTTTTAGTGAATTTCCTATATTTGTTCTACTGATTACTACTGCTTCCACCAAAGGATAAGAT-TTCTTGAAATGCAAACCACTTAGCATTAGCTTTAGTAATAAGAAATCGAAACCTGACCCCCTTCACTACAATTATATGTA--TTT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I

a score=1206256.000000
s hg38.chr21_GL383579v2_alt     38589 126 +    201197 ACCCACAGTTGAAATTGAAGTAAAAAATTACAATGTTGCAAgccaggcat--------------------------ggcggtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttaagttgaggagtttggagctgtag
s panTro5.chr21               8660952 126 +  33445071 ACCCACAGTTGAAATTGAAGTAAAAAATTACAATGTTGCAAgccaggcat--------------------------ggcggtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttaagctgaggagtttggagctgtag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196470 126 +  46275980 ACCCACAGTTGAAATTGAAGTAAAAAATTACAATGTTGCAAgccaggcat--------------------------ggcggtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttaagctgaggagtttggagctgtag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179028 126 -  13858734 ACCCACAGGTGAAATTGAAGTAAAAAATTACAATGTTGCAAgccaggcat--------------------------ggcggtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttaagctgaggagtttggagctgtag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225150 126 +  32716333 ATCCACAGTTGAAACTGAAGTAAAAAATTACAATGTTGCAAgccaggcat--------------------------ggctgtgcatgcctgtagatccagctactctggaatctgaggcaggag----acttaagctgaggagtttagagctgtag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160617944 127 - 185818997 ATCCACAGTTGAAATTGATGTAAAAAATTACAACGTTGCAAGTCAGACACG-------------------------GGCCgtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttgagcccaggagtttggagctgtag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167254919 127 - 192294377 ATCCACAGTTGAAATTGATGTAaaaaattacaaagttgcaagtcagacacg-------------------------ggccgtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttgagcccaggagtttggagctgtag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4878797 127 -  30496662 ATCCACAGTTGAAATTGATGTAaaaaattacaaagttgcaagtcagacatg-------------------------ggccgtgcatgcctgtagatccagctactctggagtctgaggcaggag----acttgagcccaggagtttggagctgtag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13402190 126 +  21915920 ATCCACAGTTGAAATTGATGTAaaaaattacaaagttgcaagtcagacac--------------------------ggccgtgtatgcctgtagatccagctactctggagtctgaggcaggag----actggagcccaggagtttggagctgtag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19903883 126 -  90373283 ATCCACAGTTGAAATTGATGTAaaaaattacaaagttgcaagtcagacat--------------------------ggccgtgcatgcctgtagatccagctactctggagtcggaggcaggag----actcgagcccaggagtttggagctgtag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3406751 126 +   7543664 ATCCACAGTTGAAATTGATGTAaaaaattacaaagttgcaagtcagacat--------------------------ggccgtgcatgcctgtagatccagctactctggagtctgaggcaggag----actggagcccaggagtttggagctgtag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5173058 126 -  13750039 ATCCACAGTTGAAATTGATGTAaaaaattacaaagttgcaagtcagacat--------------------------ggccgtgcatgcctgtagatccagctactctggagtctgaggcaggag----actcgagtcccggagtctggagctatag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453280 121 +  50472720 TTTCGCAGTTGAAATTGGTGTAAAAAATTACAATGTTGCAAgctgggcat--------------------------agcagagcatgcctgtagacccaactattctggagtctaaggcaggag----acttgagcccaggaatttggagc-----
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8653641 121 +  13128814 TTTCATAGTTGAAATTGGCATAAAAAATTTCAATGTTGCAAgccgggctt--------------------------agtggtgtgtgcctgtagaccaagctattctggagtctgagacaggag----acttgagcccaggaatctggagc-----
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875047 121 -  14377064 TTTCACAGTTGAAATTGGTGTAAAATATTACAATGTTGCAAgccgggcat--------------------------agcggtgcccgcctgtagacccagctattctggagtctgagataggag----atttgagcccaggaatttggagc-----
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9113455 121 -   9889416 TTTCACAGTTGACATTGGTGTAAAAAGTTACAATGTTGCAAgccaggcat--------------------------agcggtgcgtgcctgtagacccagctactctggagtctgagacaggag----acttgagctcaggaatttggagc-----
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825166 156 -  38779656 TCCCACAATTGTAATTGATGTCAAAAATTAAAGTATTACATGCCAGGCATGAATTACAATATTATACgccaagcatggaggcaggtgtctatagactcagcttcttggaagaatgaagcagggggatcacttgagcccagaagtttggggctgtac
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e canFam3.chr31              17997970   0 +  39895921 C

a score=2629098.000000
s hg38.chr21_GL383579v2_alt     38715 279 +    201197 c-tcctatgattgtgcctgtaaaaagccactccactccaacctggacaatatcgcaagaatctgtgtc-AAAATATCACAGATACAATTCCTTAAAAATAATTTACTATGTCATGATTTCTCCACATTTTACATAA-GACTTAGAGCTACCTTA---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCAATAATTTTAAGTT----ATAAGTCATTTTTTGAATAATATAGTATATTTGCTTATTGA
s panTro5.chr21               8661078 279 +  33445071 c-tcctatgattgtgcctgtaaaaagccactccactccaacctggacaatatcacaagaatctgtgtc-AAAATATCACAGATACAATTCCCTAAAAATAATTTACTATATCATGATTTCTCCACATTTTACATAA-GACTTAGAGCTACCTTA---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCAATAATTTTAATTT----ATAAGTCATTTTTTGAATAATATAGTATATTTGCTTATTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196596 279 +  46275980 c-tcctatgattgtgcctgtaaaaagccactccactccaacctggacaatatcacaagaatctgtgtc-AAAATATCACAGATACAATTACCTAAAAATAATTTACTATATCATGATTTCTCCACATTTTACATAA-GACTTAGAGCTACCTTA---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCAATAATTTTAATTT----ATAAGTCATTTTTTGAATAATATAGTATATTTGCTTATTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179154 279 -  13858734 c-tcctttgattgtgcctgtaaaaagccactccactccaacctggacaatatcacaagaatctgtgtc-AAAATATCACAGATACAATTCCTTAAAAATAATTTACTATATCATGATTTCTCCACATTTTACATAA-GACTTAGAGCTACCTTA---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCAATAATTTTAATTT----ATAAATCATTTTTTGAATAATATAGTATATTTGCTTATTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225276 273 +  32716333 tgtcctatgattgtgcctgtaaaaagccactccactccaacctggacaatatcacaagaatc--tgtc-AAAATAACGCAGATACAATTCCTTAAAAATAATTTACAATATCATGATTTCTCCAAATTTTACATAA-GACTTAGAGCTACCTTA---TGTTAAAGGTAGCAAACAGTT-----ATAACTCATTTTCATGAAGCTTTACGACTTCATCC-TTCTATCACTGCAATTATTTTAATTT----ATAAGTCATTTTTTGAATAATATAGTATATTTTCTTGTCGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618071 279 - 185818997 tgtgttatcattgtgcctgtaaacagccactccactccaacctggacaatatcgcaagaatctgtgtc-aaaataacaaaGATACAATTCCTTGCAAATAATTTACAATATCATGATTTCTCCAAATTTTACATAA-GACTTAGAGGTAACTTG---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCTATAATTTTAATTG-----TAAGTCATTTTTTGAATAATATAGTATACCTGCTTATTga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167255046 279 - 192294377 tgtgttatcattgtgcctgtaaacagccactccactccaacctggacaatatcgcaagaatctgtgtc-aaaataacaaaGATACAATTCCTTACAAATAATTTACAATATCATGATTTCTCCAAATTTTACATAA-GACTTAGAGCTAACTTG---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCTATAATTTTAATTG-----TAAGTCATTTTTTGAATAATATAGTATACCTGCTTATTga
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4878924 279 -  30496662 tgtgtcatcattgtgcctgtaaacagccactccactccaacctggacaatatcgcaagaatctgtgtc-aaaataacaaaGATACAATTCCTTACAAATAATTTACAATATCATGATTTCTCCAAATTTTACATAA-GACTTAGAGCTAACTTG---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCTATAATTTTAATTG-----TAAGTCATTTTTTGAATAATATAGTATACCTGCTTATTga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13402316 279 +  21915920 tgtgttatcattgtgcctgtaaacagccactccactccaacctggacaatatcgcaagaatctgtgtc-gaaataacaaaGATACAATTCCTTACAAATAATTTACAATATCATGATTTCTCCAAATTTTACATAA-GACTTAGAGCTAACTTG---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCTATAATTTTAATTG-----TAAGTCATTTTTTGAATAATATAGTATACCTGCTTATTga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904009 280 -  90373283 tgtgttatcattgtgcctgtaaacagccactccactccaacctggacaatattgcaagaatctgtgtc-aaaataacaaaGATACAATTCCTTAAAAATAATTTATAATATCATAATTTCTCCAAATTTTACATAA-GACTTAGAGCTAACTTG---AGTTAAAGGTAGCAAACAGTTATATGATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCTATAATTTTAATTG----ATAAGTCATTTTTTGAATAATATAGTATACTTGCTTATTga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3406877 279 +   7543664 tgtgttatcattgtgcctgtaaacagccactccactccaacctggacaatattgcaagaatctgtgtc-aaaataacaaaGATACAATTCCTTACAAATAATTTACAATATCATGATTTCTCCAAATTTTACATAA-GACTTAGAGCTAACTTG---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCC-TTTTATCACTGCTATAATTTTAATTG-----TAAGTCATTTTTTGAATAATATAGTATACCTGCTTATTga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5173184 281 -  13750039 tgtgttatcattgtgcctgtaaatagccactccactccaacctggacaatatcacaagaatctgtgtc-aaaataacaaaGATACAATTCTTTAAAAATAATTTACAATATCACGATTTCTCCAAATTTTACATAA-GACTTAGAGCTAACTTG---AGTTCAAGGTAGCACACAGTTTTATCATAACTCATTTTCATGAAGCTTTAGGACTTCATCCTTTTTATCACTGCTATGATTTTAATTG----ATAAGTCCTTTTTGGAATAATATAGTATACTTGCTTATTGA
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26453401 273 +  50472720 --tgctatgattgtgcctgaaaatagccactgcaatccaacatggacaatattgcaagaatctgtgtc-aactaaacaaagaaaCAACTCCTTCAAAATACATTGCAATATCATAATTTCTCCAAATTTTACATAAGGACTTAGAGCCACCTTA---AGTTATAGTTAGCAAACAGTTATG-----ACTCATTTTCCTGAAGCTTTGGGACTTTACCC-TTTTGTCACTGCAAGAACTTTAATTT----AGAAGTCATTTTT-Gaataatatagtatatttgtttattta
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8653762 277 +  13128814 --tgctatgattgtgcctgtaaatagccactgcactacaacctggacagtattgcaataatctgtgtc-aaataaataaagaaaCAATTCTTTCAAAATATTTTACAATATCATCATTTCTCCAAATTTTACATAA-GACTTAGAGCCACCTTA---AGTTAAAGGTAGCAAACACTTATATCATTACTCATTTTCCTACAGCTTTGACACTTTATGC-TTTTGTCACTGTAATAATTTTAATTT----ATAAGTCATTTTT-GAATAATATAGTATATTTGCTTATTGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875168 273 -  14377064 --tgctatgactgtgcctgtaaattgccactgcactccaacgtggacagtattgcaagaatctgtgtc-aaataaacaaag----aaTTCCTTCAAAATACGTTACAATATCATCATTTCTCCAAATTTTACATAA-GACTTAGAGCCACCTTA---AGTTAAAGGTAGCAAACAGTTAAATCATAACTCATCTTCCTGCAGCTTTGACACGTTATCC-TTTTGTCACTGCAATAATTTTAATTT----ATAAGTCATTTTT-GAATAATATAGTATATTTCCTTATTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9113576 275 -   9889416 --tgctatgactgtgcctgtaaatagccactgcactccaacgtggacagtattgcaagaatc--tgtc-aaataaacaaagaaaCAACTCCTTCAAAATACTTTACAATATCATAATTTCTCCAAATTTTACATAA-GACTTAGAGGCACATTA---AGTTAAAGGTAGCAAACAGTTATATCATAACTCATTTTCCTGGAGCTTTGGGACTTTATCC-TTTTGTCACTGCAAGAATTTTAATTT----ATAAGTCATTTTT-GAATAATATTGTATATTTGCTTATTGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825322 242 -  38779656 a-ttctgtgactgcatctggaaatagccactgcactttagcctagataacacagtgtgaccatgtgcctgaaaaaaaaaaaaaaaaaTTCCTTCAAAA----------------------------------AAAG-AATTTAGATCTACTTTA---AGTTAAAGGTAAGTAAAAGTTAAA-AATCACTC---TTTACAAAGTTTTAGGACTTTATCT-TTTTGTTATGGCAACAATTTTGACTT----AGAAATTGGTTTTTAAATAGCATGGTATATATGCTTACTGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17997970 193 +  39895921 -TTTCTATAATTGTGGTTG--------------------------------------------GTGGC-AAA-------AATTATAATACT-----------------TATCATAATTTCTTCAAATTTTCTGTAACAGCTTAGAGCTACCTTACCTAGTTAAA----------------AACATACATCATTTTCATACACTTTTAG-----------AATCGTCATGACAATATTTTTTATTTACAAATAAATCATTTCCTAAGCAACAGAGCACATTTGAGTAATTG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I

a score=12231.000000
s hg38.chr21_GL383579v2_alt     38994 3 +    201197 TTT-
s panTro5.chr21               8661357 3 +  33445071 TTT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196875 3 +  46275980 TTT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179433 3 -  13858734 TTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225549 3 +  32716333 TTT-
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167255326 2 - 192294377 -tt-
i macFas5.chr3              I 1 C 0
s colAng1.NW_012120598v1      5173466 2 -  13750039 -TT-
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26453674 3 +  50472720 ttt-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654039 3 +  13128814 TTT-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875441 3 -  14377064 TTT-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9113851 3 -   9889416 TTT-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825564 3 -  38779656 ttt-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17998163 3 +  39895921 -TTG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e rheMac8.chr3              160618350 0 - 185818997 C
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=10670.000000
s hg38.chr21_GL383579v2_alt     38997 2 +    201197 TT
s panTro5.chr21               8661360 2 +  33445071 TT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196878 2 +  46275980 TT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179436 2 -  13858734 TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225552 2 +  32716333 TT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173468 2 -  13750039 TT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453677 2 +  50472720 tt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654042 2 +  13128814 TT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875444 2 -  14377064 TT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9113854 2 -   9889416 TT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825567 2 -  38779656 tt
i otoGar3.GL873528          C 0 I 198
s canFam3.chr31              17998166 2 +  39895921 CT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=82910.000000
s hg38.chr21_GL383579v2_alt     38999 20 +    201197 AAAATGCACGCTACTTGTAG
s panTro5.chr21               8661362 20 +  33445071 AAAATGCACGCTACTTGTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196880 20 +  46275980 AAAATGCACGCTACTTGTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179438 20 -  13858734 AAAATGCACGCTACTTGTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225554 20 +  32716333 AAAATGCACACTACTTGTAG
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173470 20 -  13750039 AAAATGCAAGTTACTTGTAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453679 20 +  50472720 aaaaGGCAAGCTACTTGTAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654044 20 +  13128814 AAAATGCAAGCTACTTATAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875446 20 -  14377064 AAAATGCAAGCTACTTATAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9113856 20 -   9889416 AAAATGCAAGCTACTTATAG
i aotNan1.NW_018487195v1    C 0 I 215
s otoGar3.GL873528           24825767 20 -  38779656 AAAGTTTATACTCCTTATAA
i otoGar3.GL873528          I 198 C 0
s canFam3.chr31              17998168 20 +  39895921 AAACCTTCAGCTGCTGACAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=53978.000000
s hg38.chr21_GL383579v2_alt     39019 16 +    201197 ATTTCTTCTTGCATTA
s panTro5.chr21               8661382 16 +  33445071 ATTTCTTCTTGCGTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196900 16 +  46275980 ATTTCTTCTTGCGTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179458 16 -  13858734 ATTTCTTCTTGCGTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225574 16 +  32716333 ATTTCTTCTTGCATTA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173490 16 -  13750039 CTTTCTTCTTGTGTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453699 16 +  50472720 CCTTCTTCCTGTATTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654064 16 +  13128814 CTTTCTTCCTGTATTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875466 16 -  14377064 CTTTCTTCCTGTATTA
i cebCap1.NW_016107322v1    C 0 I 191
s otoGar3.GL873528           24825787 16 -  38779656 CTTTCTTCCCATATTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17998188 16 +  39895921 TTTTATTCCCTGATTA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e aotNan1.NW_018487195v1      9113876 215 -   9889416 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=27059.000000
s hg38.chr21_GL383579v2_alt     39035 5 +    201197 GAAAT
s panTro5.chr21               8661398 5 +  33445071 GAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196916 5 +  46275980 GAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179474 5 -  13858734 GAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225590 5 +  32716333 GAAAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173506 5 -  13750039 GAAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453715 5 +  50472720 GAAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654080 5 +  13128814 GAAAT
i saiBol1.JH378168          C 0 I 192
s cebCap1.NW_016107322v1     13875673 5 -  14377064 GAAAT
i cebCap1.NW_016107322v1    I 191 C 0
s aotNan1.NW_018487195v1      9114091 5 -   9889416 GAAAT
i aotNan1.NW_018487195v1    I 215 C 0
s otoGar3.GL873528           24825803 5 -  38779656 GAAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17998204 5 +  39895921 GAAAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=21241.000000
s hg38.chr21_GL383579v2_alt     39040 4 +    201197 GAAC
s panTro5.chr21               8661403 4 +  33445071 GAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196921 4 +  46275980 GAAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179479 4 -  13858734 GAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225595 4 +  32716333 GAAC
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173511 4 -  13750039 GAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26453720 4 +  50472720 GAAC
i calJac3.chr21             C 0 I 926
s saiBol1.JH378168            8654277 4 +  13128814 GAAC
i saiBol1.JH378168          I 192 C 0
s cebCap1.NW_016107322v1     13875678 4 -  14377064 GAAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9114096 4 -   9889416 GAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825808 4 -  38779656 GAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              17998209 4 +  39895921 GAGT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=153562.000000
s hg38.chr21_GL383579v2_alt     39044 40 +    201197 GATCTGGTGACCACTGGATGTGGTAAATGAGGAAAACTTC
s panTro5.chr21               8661407 40 +  33445071 GATCTGGTGACCACTGGATGTGGTAAATGAGGAAAACTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196925 40 +  46275980 GATCTGGTGACCACTGGATGTGGTAAATGAGGAAAACTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179483 40 -  13858734 GATCTGGTGACCACTGGATGTGGTAAATGAGGAAAACTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225599 40 +  32716333 GATCTGGTGACCACTGGATGTGGTAAATGAGGAAAACTTC
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173515 40 -  13750039 AATCTGGTGACCACTCCATGTGGTAAATGAAGAAAACTTC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8654281 40 +  13128814 CATCTGATCACCACGGGATGTGACAAATGAGGAAAACTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875682 40 -  14377064 CATCTGGTGACCACTGGATGTGACAAATGAGGAAAACTTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9114100 40 -   9889416 CATCTGGTGACCACTGGATGTGACAAATGAGGAAAACTTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825812 40 -  38779656 GATCTTGTGACAATTTTGCGTGGTAATTAAGGAAATCTTC
i otoGar3.GL873528          C 0 I 3
s canFam3.chr31              17998213 38 +  39895921 GATCTGATTACCAATC--TGTGGTAAATGAGGAAAACTTC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e calJac3.chr21              26453724 926 +  50472720 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=202953.000000
s hg38.chr21_GL383579v2_alt     39084 57 +    201197 AAAAGtaa-ct------aata--agtaatagattaacataataataataaAACCTTCCCCATTTCC
s panTro5.chr21               8661447 57 +  33445071 AAAAGtaa-ct------aata--agtaatagattaacataataataataaAACCTTCCCCATTTCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22196965 57 +  46275980 AAAAGtaa-ct------aata--agtaatagattaacataataataataaAACCTTCCCCATTTCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179523 57 -  13858734 AAAAGTAA-CT------AATA--AGTAATAGATTAACATAATAATAACAAAATCTTCCCCATTTCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225639 57 +  32716333 AAAAGTAA-CC------aata--agtaatagattaacataataataataaAACCTTCCCCATTTCC
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173555 57 -  13750039 AAAAATAA-CT------AATA--AGTCCTAGATCAACATAATAATGGTAAAACCTTCCCCATTCCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26454650 53 +  50472720 AAAAGTAATTT------AATA--AGTAATAGCTCAACACAATAATAATAAAATCTCA-----TCTC
i calJac3.chr21             I 926 C 0
s saiBol1.JH378168            8654321 57 +  13128814 AAAAGTAA-CT------AATA--AGTAATAGATCAACATAATACAAATAAAACCTTCCTCGTTCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13875722 57 -  14377064 AAAAGTAA-CG------aata--agtaatagatcaacataataataataaAACCTTCCTCGTTCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9114140 56 -   9889416 AAAAGTAA-CT------AATA--AGTAATAGATCAACGTAATAATAAT-AAACCTTCTTCATTCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24825855 65 -  38779656 AGTGCTAA-TTTGGGGGAATATCTGTCAGAAAATAAGAGGACAAAAATACATCTATGTCCAttttc
i otoGar3.GL873528          I 3 I 206
s canFam3.chr31              17998251 51 +  39895921 AAAATTAA-TT------AATG--AGTAATAGATAAACATAATAATAA--AAACTTT----ATTACC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=819264.000000
s hg38.chr21_GL383579v2_alt     39141 210 +    201197 AAATTCCAGTGGAAATACTTACAAACACAGACCAAACATAAATGTTTAACTATGTCTATGCATGTGTAAATTTGGATAAACACTAGT--AAAAATATTGATAAAAGAT---CATATATTCAGAAATTGGAGTTGTTTCTACATCTTGATTAAAC-TAACAGGGGATACTGTTGACTCTTTCAAAAATAACAGTTTTAAAATAAGGAGCCTACATTT
s panTro5.chr21               8661504 211 +  33445071 AAATTCCAGTGGAAATACTTACAAACACAGACCAAACATAAATGTTTAACTATGTCTATGCGTGTGTAAATTTGGATAAACAATAGT-AAAAAATATTGATAAAAGAT---CATATATTCAGAAATTGGAGGTGTTTCTACATCTTGATTAAAC-CAGCAAGGGATACTGTTGACTCTTTCAAAAATAACAGTTTTAAAATAAGGAGCCTACATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22197022 211 +  46275980 AAATTCCAGTGGAAATACTTACAAACACAGACCAAACATAAATGTTTAACTATGTCTATGCGTGTGTAAATTTGGATAAACAATAGT-AAAAAATATTGATAAAAGAT---CATATATTCAGAAATTGGAGGTGTTTCTACATCTTGATTAAAC-CAGCAAGGGATACTGTTGACTCTTTCAAAAATAACAGTTTTAAAATAAGGAGCCTACATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179580 211 -  13858734 AAATTCCAGTGGAAATACTTACAAACACAGACCAAACATAAATGTTTAACTATGTCTATGCGTGTGTAAATTTGGATAAACAATAGT-AAAAAATATTGATAAAAGAT---CATATATTCAGAAATTGGAGGTGTTTCTACATCTTGATTAAAC-TAACAGGGGATACTGTTGACTCTTTCGAAAATAACAGTTTCAAAATAAGGAGCCTACATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225696 211 +  32716333 AAATTCCAGTGGAAATATTTACAAACACAGACCAAACATAAATGTTTAACTATGGCTATGCGTGTGTAAATTTGGAAAAATAATAGT-AAAAAATATTGATAAAATAT---CATACATTCAGAAATTGGAGGTGTTTCTACATCTTGATTAAAC-TAACAGGGGATACTGTTGACTCTTTCAAAAATAATAGTTTTAAAATAAGGAGCCTACATTT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173612 207 -  13750039 AAATTCCAGTGGAAATACTT----ACACAGACCAAACATAAATGTTTAACTATGTCTATGCATGTGTGAATTTGGATAAACAATAGC-AAAAAAACTTGATAAAAGAT---CATATATTCAGAAATTGGAGGTGTTTCTACATCTTGATTAAAC-TAACAGGGGATACTGTTGACTCTTTCAAAAATAATAGTTTTAAAATAAGAAGCCTAAATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26454703 208 +  50472720 AAATT-CAGTGGAAGTA-TTACAAACACAGACCAAACATAAATGTTAAACTCTGTCTATGCATATGTAAATTTGAATAAACAATAGT--AAAAATATTGATAAAAGAT---CATATATCCAGAAATTAGAGGTGTTTCTACATCTTGATTAAAC-TAACAGTGGATACTGTTGACTCTTTCAAAAAAAATGGTTTTAAAATAAGGAGCCTAAACTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654378 212 +  13128814 AAATTCCAGTGGAAATATTTACAAACACAGACAAAACATAAATGTTAAACTATATCTATGCATGTGTAAATTTGGATAAACAACAGT-AAAAAATATTGATAAAAGAT---CATATATCCAGAAATTAGAGGTGTTTCTATGTCTTAATTAAACTTAACAGGGGATACTGTTGACTCTTTCAAAAATAATGGTTTTAAAGCAAGGGGCTTAAATTT
i saiBol1.JH378168          C 0 I 80
s cebCap1.NW_016107322v1     13875779 212 -  14377064 AAATTCCAGTGGAAATATTTACAAACACAGACAAAACATAAATGTTAAACTATATCTATGCATGTGTAAATTTGGATAAACAATAGTAAAAAAATATTGATAAAAGAT---CATATATCCAGAAATTAGAGGTGTTTCTACATCTTAATTAAAC-TAACAGGGGATACTGTTGACTCTTTCAAAAATAATGGTTTTAAAATAAGGAGACTAAACTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9114196 211 -   9889416 AAATTCCAGTGTAAATATTTACAAACACAGACCAAACATAAATGTTAAACTATGTCTATGCATATGTAAATTTGGATAAACAATAGT-AAAAAGTATTGATAAACGAT---CATATATCCAGAAATTAGAGGTGTTTCTACATCTTGATTAAAC-TAACAGTGGATACTGTTGACTCTTTCAAAAACAATGGTTTTAAAATAAGGAGTCTAAACTT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17998302 187 +  39895921 AAACACCAATGAAAACGTGTGGATACATAGACCAAA------------------TGTGTGTCTGTGAAATTTTGGCTTAA-AAGAGT---GAAACAATGATAAAGGATGGCCACATATCTAGA------AGCTGTTTCTACTTATTGATTGAAT-TGACAGGAGATACCACTGACTTTCCTAAAAACATTAGTTTTAAAATAAAGAGGATATATTT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=1684977.000000
s hg38.chr21_GL383579v2_alt     39351 530 +    201197  
s panTro5.chr21               8661715 528 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22197233 528 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8179791 531 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9225907 531 +  32716333  
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5173819 531 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26454911 529 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13875991 527 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9114407 532 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              17998489 564 +  39895921  
i canFam3.chr31             C 0 I 1001
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=408162.000000
s hg38.chr21_GL383579v2_alt     39881 154 +    201197 gtcagccttcagtatccatgggggattggttccaggaacctacagataccaaaatccatggatgctcaaatctcttatataaaatattgtagtagttacatttaacctatgcacatcatcctgtatactttaaatcatctctagattactcata
s panTro5.chr21               8662243 154 +  33445071 gtcagccttcagtatccatgggggattggttccaggaacctacagacaccaaaatccacggatgctcaaatctcttatataaaatattgtagtagttacatttaacttatgcacatcatcctgtatactttaaatcatctctagattacttata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22197761 154 +  46275980 gtcagccttcagtatccatgggggattggttccaggaacctacagacaccaaaatccacggatgctcaaatctcttatataaaatattgtagtagttacatttaacttatgcacatcatcctgtatactttaaatcatctctagattacttata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180322 154 -  13858734 gtcagccttcagtatccatgggggattggttccaggaacctacagataccaaaatccatggatgctcaaatctcttatataaaacattgtagtagttacatttaacctatgcacatcatcctgtatactttaaatcatctctagattacttata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9226438 154 +  32716333 gtcaaccttcagtatccatgggggattggttccaggaacctacagataccaaaatccacggatgctcaaatctcttatataaaatattgtagtagttacatttaacctatgcacatcatcctgtatactttaaatcatctctagattacttata
i nomLeu3.chr25             C 0 M 100
s colAng1.NW_012120598v1      5174350 136 -  13750039 GTCAGCCTTCAGTA----------------tccaggaacctacagataccaaaatccatggttgctcaaatcacttatataaaatattgtaatagttacgtataacttatgcacatcatcctgaatattttaaatc--ctctggattacttata
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26455440 153 +  50472720 TTCAGccttcactacccat-gggcattggctccagcaacctgcagataccaaaatccatggatgctcaagtctcttatataaaatattgtagtagttacatataacctatgcacatcatcctgtatacttgaaatcatctccagattacctata
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13876518 152 -  14377064 TTCAGccttcactatccat-gggcattagctccagcaacctgcagataccaaaatccatggatgctcaagtctc-tacataaaatattgtagtagttacatacaacttatgcacagcagcctgtatacttgaaattatgtctagattacctata
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9114939 150 -   9889416 TTCAGccttcactatccac-gggcattggctccagcaacctgcagatcccaaaatccatggatgctcaagtctcttatataaaatgtt---gtggttacatataacctatgcacatcattctgtatagttgaaatcatgtctagattacctata
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=233832.000000
s hg38.chr21_GL383579v2_alt     40035 123 +    201197 accaatacaatataagtgccatgtaaacacttattatactgtattTTGTAt-----tttttatt---------gttatattttta-t----------------tttttttCAAATATGATCTCTCCAGTGTTGGTGGAATCTGCAAATTCAGAT
s panTro5.chr21               8662397 124 +  33445071 accaatacgatataagtgccatgtaaatacttattatactgtattTTGTAC-----tttttatt---------gttatatttttatt----------------tttttttCAAATATGATCTCTCCAGTGTTGGTGGAATCTGCAAATTCAGAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22197915 123 +  46275980 accaatacgatataagtgccatgtaaatacttattatactgtattTTGTAC-----TTTTTATT---------GTTATATTTTAT-T----------------TTTTTTTCAAATATGATCTCTCCAGTGTTGGTGGAATCTGCAAATTCAGAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180476 123 -  13858734 accaatacaatataagtgccatgtaaatacttattatactgtattTTGTAT-----TTTTTATA---------GTTATATTTTTA-T----------------TTTTTTTCAAATATGATCTCTCCAGTGTTGGTGGAATCTGCAAATTCAGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5174486 139 -  13750039 accaatacaatgtaagtgccatgtaaatagctgttacactgtattTTGtat-----tttttatt---------gttatattgtta-tttgtattattattatatttttTTCAGATTCGATCTCTCCAGTGTTGGTGGAATCTGCAAATTCAGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26455593 140 +  50472720 atcaatacaatgtaagtgctatgtaaatagctgttatgctttattTTGtatttgtatttttgtt---------tttgtattgtta-tttttattgtt-tt---atttttTCAAATATGATCTCTCAGGGGTTGGCGGAATCTGCAAATTCGGAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13876670 150 -  14377064 atcaatacaatgtaagtgctatgtaaatagctgttatactttattttgtatttgtatttttattgttatattgtttatattgtta-tttttattgttctt---tttttttCAAATATGATCTCTCAGGAGTTGGCAGAATCTGTAAATTCAGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9115089 140 -   9889416 atcaatacaatgtaagtgctatgtaaatagctgttatactTAattttgtatttgtatttttatt---------gttatattgtta-tgtttattgtt-tt---tttttttCAAATATGATCTCTCAGGAGTTGGCAGAATCTGTAAATTCAGAA
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9226592 100 +  32716333 M

a score=132575.000000
s hg38.chr21_GL383579v2_alt     40158 46 +    201197 GCCGTGAGTACAGAGAGTTGATTTTACTTCCATGAATCAATAGATT
s panTro5.chr21               8662521 46 +  33445071 GCCGTGAGTACAGAGAGTCGATTTTACTTCCATGAATCAATAGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198038 46 +  46275980 GCCGTGAGTACAGAGAGTCGATTTTACTTCCATGAATCAATAGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180599 46 -  13858734 GCCGTGAGTACAGAGAGTCGATTTTACTTCCATGAATCAATAGATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9226694 46 +  32716333 GCCGTGAGTACAGAGAGTCGATTTTACTTCCATGAATCAATAGATT
i nomLeu3.chr25             M 100 I 1044
s colAng1.NW_012120598v1      5174625 46 -  13750039 GTCGTGAGTACAGAAAGTCGATTGCACTTCCATGAATCAATAGATT
i colAng1.NW_012120598v1    C 0 I 529
s calJac3.chr21              26455733 46 +  50472720 GCAGTGAGTACAGAGGGCAAATTTTACTTCCCTAAATCAATAGATT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13876820 46 -  14377064 GCAGTGAGTACAGAGAGTTGATTATACTTCCCTAAATCAATAGATT
i cebCap1.NW_016107322v1    C 0 I 938
s aotNan1.NW_018487195v1      9115229 46 -   9889416 GCAGTGAGTACAGAGAGCTGATTATACTTCCCTGAATCAATAGATT
i aotNan1.NW_018487195v1    C 0 I 909
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=13128.000000
s hg38.chr21_GL383579v2_alt     40204 12 +    201197 AATATTCATGTT
s panTro5.chr21               8662567 12 +  33445071 AATACTCATGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198084 12 +  46275980 AATACTCATGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180645 12 -  13858734 AATATTCATGTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              23488561 12 -  32716333 aatattcctgtc
i nomLeu3.chr25             n 1044 C 0
s calJac3.chr21              26455779 10 +  50472720 --CTTTCAAGTA
i calJac3.chr21             C 0 C 0
s aotNan1.NW_018487195v1       773268 12 +   9889416 AATATTCATGGC
i aotNan1.NW_018487195v1    n 909 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13876866 938 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5174671 529 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=35819.000000
s hg38.chr21_GL383579v2_alt     40216 17 +    201197 CAAA-ACAAGTAGTCTTA
s panTro5.chr21               8662579 17 +  33445071 CAAA-ACAAGTAGTCTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198096 17 +  46275980 CAAA-ACAAGTAGTCTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180657 17 -  13858734 CAAA-ACAAGTAGTCTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              23488573 17 -  32716333 caaa-acaagtagtctta
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      8574870 17 +  13750039 caaa-acaagtagtCTTA
i colAng1.NW_012120598v1    n 529 C 0
s calJac3.chr21              26455789 18 +  50472720 TAAATAAAAATAGACTTA
i calJac3.chr21             C 0 I 896
s aotNan1.NW_018487195v1       773280 17 +   9889416 CAAA-ACAAGTAGTTTTA
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13876866 938 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=545213.000000
s hg38.chr21_GL383579v2_alt     40233 260 +    201197 TAGATTTGAAG---AGAATGCAAAGCAGAGCTGGAAAGTGAATGCCTCTTTGTTGTGAGTCATCATTATTTGTCCAATATAGGTTAGTAATTTGAGTTTATTTTATAGTTTTTCTCTGCTATCCTCAGACATCAGACTCTTAATTCTTATCTCCTTTTAATTATTACAGGAGAAATATTTACAGCTTTGCTAAAGAGCTTGTGAATCATAGTGTTTGCTGAAAGCTCTAATTCAGGTTGACTACAGCGTTGACA-TTTTGCAAG
s panTro5.chr21               8662596 259 +  33445071 TAGATTTGAAG---AGAACGCAAAGCAGAGCTGGAAACTGAATGCCTCTTTGCTGTGAGTCATCATTATTTGTCCAATATAGGTTAGTAATTTGAGTTTATTTTATA-TTTTTCTCTGCTATCCTCAGACATCAGACTCTTAATTCTTATCTCCTTATAATTATTACGGAAGAAATATTTACAGCTTTACTAAAGAGCTTGTGAATCATAGTGTTTGCTGAAAGCTCTAATTCAGGTTGACTACAGCGTTGACC-TTTTGCAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198113 259 +  46275980 TAGATTTGAAG---AGAACGCAAAGCAGAGCTGGAAAGTGAATGCCTCTTTGCTGTGAGTCATCATTATTTGTCCAATATAGGTTAGTAATTTGAGTTTATTTTATA-TTTTTCTCTGCTATCCTCAGACATCAGACTCTTAATTCTTATCTCCTTATAATTATTACGGAAGAAATATTTACAGCTTTACTAAAGAGCTTGTGAATCATAGTGTTTGCTGAAAGCTCTAATTCAGGTTGACTACAGCGTTGACC-TTTTGCAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180674 260 -  13858734 TAGATTTGAAG---AGAACTCAAAGCAGAGCTGGAAAGTGAATGCCTCTTTGTTGTGAGTCATCATTATTTGTCCAATATAGGTTAGTAATTTGAGTTTATTTTATAGTTTTTCTCTGCTATCCTCAGACATCAGACTCTTAAGTCTTATCTCCTTATAATTATTATAGGAGAAATATTTACAGCTTTACTAAAGAGCTTGTGGATCATAGTGTTTGCTGAAAGCTCTAATTCAGGTTGACTACAGCGTTGACC-TTTTGCAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              23488590 261 -  32716333 tagatgtgaag---agaaCCCAAAGTGGAGATGGAAAGTGAATGCCTCTTTGTTGTGAGTCATCATTATTTGTCCAATATAGGTTAGTATGTTGAGTTTATTTTATAGTTTTGCTATGCTATCCTCAGACATCAAACTCTTAATTCTTATCTCCTTATAATTATTACAGGAGAAATATTTACAGCTTTACTAAAGAGCTGCTGAATCATAGTGTTTGCTGAAAGCTGTAATTCAGGTTGACTACAATGTTGACCTTTTTGCAAG
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      8574887 260 +  13750039 AAGATTTGAAG---AGAACACAAAGCGGAGTTGGAAAGTGAATGCCTCTTTGTTGTGAGTCATCATTATTTGTCCAATATAGGTTAATATTTTAAGTTTATTTTATAGTTTTTCTCCTCTATCCTCAGACATCAGACTCTTAATTTTTATCTCCTTATAATTATTACAGGAGAAATATTTACAGCTTTACTATAAAACTTCTGAATCATAGTATTTGCTGAAAGCTCTAATTCAGGTTGATTACAGCGTTGACC-TTTTGCAAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              24016052 261 -  50472720 TAGATTTGAAGAGAAGAACACAAAGCGGAATTGGAGAGTGAATGCCTCTTTGTTGTGAGTGGTAATTATTTCTCCAAT-TAGGTTAGTATTTTGAGTTTCTTTTATGGTCTTTCTCCTCTACCCTCACATATCAGACTTTTAATTCTTATCTCCTTATAATTATTACACAAGGAATATTTGCAGCTTTGCTATACAGCTTCTGAATCACACTGTTTGCTG-AAGCCCTAAATTAGGTTAACTACAGAGGTGAAC-TTTTGCATG
i calJac3.chr21             n 896 T 30832
s aotNan1.NW_018487195v1       773297 263 +   9889416 TAGATTTGAAGAGAAGAACACAACGTGGAATTGGAGAGTGAATGCCTCTTTGTTGTGAGTCGTCATTATTTCGCCAATATAGGTTAGTATTTTGAGTTCTTTTTATGGTCTTTCTCCTCTATCCTCACATATCAGACTTTTAATTCTTATCTCCTTATAATTATTACACAATAAATATTTACAGCTTTGCTATACAGCTTCTGAATCATACTGTTTGCTGAAAGATCTAAATTAGGTTAACTACCGCAGTGACC-TTTTGCATG
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13876866 938 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=10384.000000
s hg38.chr21_GL383579v2_alt     40493 8 +    201197 TTAGAAAT
s panTro5.chr21               8662855 8 +  33445071 TTAGAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198372 8 +  46275980 TTAGAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180934 8 -  13858734 TTAGAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              23488851 8 -  32716333 TTAGAAAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      8575147 8 +  13750039 ATAGAAAT
i colAng1.NW_012120598v1    C 0 n 0
s calJac3.chr21              26456703 4 +  50472720 ACAG----
i calJac3.chr21             I 896 C 0
s aotNan1.NW_018487195v1       773560 8 +   9889416 ATAGAAAT
i aotNan1.NW_018487195v1    C 0 T 26636
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13876866 938 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=3159.000000
s hg38.chr21_GL383579v2_alt     40501 6 +    201197 ---TTTCTA
s panTro5.chr21               8662863 6 +  33445071 ---TTTCTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198380 6 +  46275980 ---TTTCTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180942 6 -  13858734 ---TTTCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25              23488859 6 -  32716333 ---tttctt
i nomLeu3.chr25             C 0 n 0
s calJac3.chr21              26456707 6 +  50472720 TTATTT---
i calJac3.chr21             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13876866 938 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1       773568 26636 +   9889416 T
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      8575155 0 +  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=3160.000000
s hg38.chr21_GL383579v2_alt     40507 3 +    201197 ACT
s panTro5.chr21               8662869 3 +  33445071 ACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198386 3 +  46275980 ACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180948 3 -  13858734 ACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9227784 3 +  32716333 act
i nomLeu3.chr25             I 1044 C 0
s calJac3.chr21              26456713 3 +  50472720 ACA
i calJac3.chr21             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13876866 938 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1       773568 26636 +   9889416 T
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      8575155 0 +  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=26656.000000
s hg38.chr21_GL383579v2_alt     40510 18 +    201197 tactttaattattataat
s panTro5.chr21               8662872 18 +  33445071 TACTTTAATAATTATAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198389 18 +  46275980 TACTTTAATTATTATAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180951 18 -  13858734 TACTTTAATTATTATAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9227787 18 +  32716333 tacttgaattattatgat
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5175200 16 -  13750039 tactttaattattatg--
i colAng1.NW_012120598v1    I 529 C 0
s calJac3.chr21              26456716 14 +  50472720 TACATTAATTATTA----
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13877804 14 -  14377064 tactttaattatta----
i cebCap1.NW_016107322v1    I 938 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1       773568 26636 +   9889416 T
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=1262219.000000
s hg38.chr21_GL383579v2_alt     40528 473 +    201197  
s panTro5.chr21               8662890 473 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198407 473 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8180969 473 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9227805 472 +  32716333  
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5175216 459 -  13750039  
i colAng1.NW_012120598v1    C 0 M 2840
s calJac3.chr21              26456730 506 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13877818 475 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9116184 476 -   9889416  
i aotNan1.NW_018487195v1    I 909 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=305247.000000
s hg38.chr21_GL383579v2_alt     41001 159 +    201197 CT----TTTATTATTTATAAAAATATAGGAAAAATCCAGATATTAAAAGGTACATAAAAGTCTGTCCAGGTCACTGTGTAGATAAAAGAAATGAGAAATGTAAAGTTGATACTACTGAGAATGAGATAGAAATAGGAGAATTTTTAAAAACCCatacatactg
s panTro5.chr21               8663363 163 +  33445071 CTTTTATTTATTGTTTATAAAAATATAGGAAAAATCCAGATATTAAAAGGTACATAAAAGTCTATCCAGGTCACTGTGTAGATAAAAGAAATGAGAAATGTAAAGTTGATGCTACTGAGAATGAGATAGAAATAGGAGAATTTTTAAAAACTCatacatactg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22198880 163 +  46275980 CTTTTATTTATTGTTTATAAAAATATAGGAAAAATCCAGATATTAAAAGGTACATAGAAGTCTATCCAGGTCACTGTGTAGATAAAAGAAATGAGAAATGTAAAGCTGATACTACTGAGAATGAGATAGAAATAGGAGAATTTTTAAAAACTCatacatactg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8181442 163 -  13858734 cttttatttattgtttatAAAAATATAGGAAAAATCCAGATATTAAAAGGTACATAAAAGTCTATCCAGGTCACTGTGTAGATAAAAGAAATGAGAAATGTAAAGTTGATACTACAGAGAATGAGATAGAAATAGGAGAATTTTTAAAAACTCatacatactg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9228277 163 +  32716333 cttctatttattatttattaAAATATAGGAAAAATCCAGATATTAAAAGGTACATAAAAATCTATCCAGGACACTGTGTAGATAAAAGAAATTAGAAATGTAAAGTTGATACTACTGAGAATGAGATAGAAACAGGAGAATTTTTAAAAACTCatacacactg
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26457236 131 +  50472720 ct----tttattatt----aaaataCAGGAAAAATTAAGATGTTAATGTGTACATAAAAATCTAGTCAGGCCACTGTGTAGAAAATAGAAA------------------------TGAGAATGGGAGAGAAATAGGAGAATTTTTAAAAATTCACACATACTG
i calJac3.chr21             C 0 I 163
s cebCap1.NW_016107322v1     13878293 155 -  14377064 CT----TTTATTATT----AAAATATAGGAAAAATTAAGATGCTAATGTGTACATAAAAATCTATTCAGGCCACTGTGTTgaaagtagaaatgagaaatgtaaaactgagactactgagaatgggagagaaataggagaaTTTTTAAAAattcacacatacta
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9116660 155 -   9889416 CT----TTTATTATT----AAAATATAGGAAAAATTAAGATGTTAATGTGTATATAAAAATCTATTCAGGCCACTGTGTAGAAAATAGAAATGAGAAACGTAAAACGAAGACTACTGAGAATGGGAGAGAAATTGGAGAATTTTTAAAAattcacatatacta
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5175675 2840 -  13750039 M
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=716473.000000
s hg38.chr21_GL383579v2_alt     41160 349 +    201197 attgtacattttgctgaagtatacgtgatattttgatacatgtatacaatgggtaatgatcaaatcagagtaattgggatattcattaactcaaacatttatctttttattc---tattaggaatattccaaatctcctctGGCAAAAAGAGTAGAAATATTAATTTTTGTTTATTACATATA--TTTTTTATACCTTCAAAAATATTTATTAAATAAAATTCCAAATATGGTATTAAATTAGATTTAAACATTCAAAATCACC-------------------AAAAAAATTTACAATTGTATAACTAAAGGTACAAATTAGTTCTATAAATACAAAAAGTATGGCAAACAATTTTGTAATATTTCCACCCTG
s panTro5.chr21               8663526 348 +  33445071 attgtacattttgctgaagtatatgtgatattttgatacatgtatacaatgtgtaatgatcaaatcagagtaactgggatattcattaactcaaacatttatctttttattc---tattaggaatattccaaatctcctctGGCAAAAAGAGTAGAAATATTAATTTTTGTTTATTACATATA---TTTTTATACCTTCAAAAATATTTATTAAATAAAATTCCAAATATGGTATTAAATTAGATTTAAACATTCAAAATCACC-------------------AAAAAAATTTACAATTGTATAACTAAAGGTACAAATTAGTTCTATAAATACAAAAAGTATGGCAAACAATTTTGTAATGTTTCCACCCTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199043 348 +  46275980 attgtacattttgctgaagtatatgtgatattttgatacatgtatacaatgtgtaatgatcaaatcagagtaactgggatattcattaactcaaacatttatctttttattc---cattaggaatattccaaatctcctctGGCAAAAAGAGTAGAAATATTAATTTTTGTTTATTACATATA---TTTTTATACCTTCAAAAATATTTATTAAATAAAATTCCAAATATGGTATTAAATTAGATTTAAACATTCAAAATCACC-------------------AAAAGAATTTACAATTGTATAACTAAAGGTACAAATTAGTTCTATAAATACAAAAAGTATGGCAAACAATTTTGTAATATTTCCACCCTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8181605 349 -  13858734 attgtacattttgctgaagtatacgtgatattttgatacatgtatacaatgtgtaatgatcaaatcagagtaattgggatattcattaactcaaacatttatctttttattc---tattaggaatattccaaatctcctctGGCAAAAAGAGTAGAAATATTAATTTTTGTTTATTACATATA--TTTTTTATACCTTCAAAAATATTTATTAAATAAAATTCCAAATATGGTATTAAATTAGATTTAAACATTCAAAATCACC-------------------AAAAAAATTTACAATTGTATAACTAAAGGTACAAATTAGTTCTATAAATACAAAAAGTATGGCAAACAATTTTTTAATATTTCCACCCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9228440 348 +  32716333 attgtacattttgctgaagtatatgtgatgttttgatacatgtatacaatgtgtaatgatcaaatcagagtaattgggatattcattaactcaaacttttatctttttattg---tattaggaatattccaaatctcctctGGCAAAAAGAGTAGAAATATTAATTTTTGTTTATTACATATA--TTTTTTATACCTTCAAAAATATTTATTAAATAAAATTCCAAATATGATATTAAATTAGATTTAAACATTCAAAATCACC-------------------AAAAAAATTTACAATTGTATAACTAAAGGTACTAATTAATCCTACAATTACAAAAAGTATGGCAAACAATTTTGTAAT-TTTCCACCCTG
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26457530 358 +  50472720 attgtacatttttctgaggtatatgtgatattttaatacaagtatataacgtctaatgatagagtcagagtaattgggatattcattaacttaaac-----tttttttttaacacttttgggaatgctccaaat---ctCTAACAAAAAGC--AGAAATATTGCTTTTTGTTTATTACATATA-TTGTTTCATATCTTCAAAAATATTTATTAAAC----TTCCAAATATGGTATTAAATTAGATTTAAACATTCAGTCTCACCCAAGCAATTATAGTAAGATTAAAACATTTAAAATTGGCTAATTAAAAGTGCCAATTATTTTTATAAATAGAAAAGGTATGGCAAACAATTTTGTACTATTTCCACCCTG
i calJac3.chr21             I 163 C 0
s cebCap1.NW_016107322v1     13878448 363 -  14377064 attgcacatttttctgaggtgtatgtgatattttgatacaagtatacaacgtgtaatgataaaatcagagtaattgggatattcattaacttacac-----tttttttatag---tgttgggaatattccaaatctcctctAACAAAAAGA--AGAAATATTGCTTTTTGTTTATTACATGTATTTTTTTCATGCCTTCAAAAATATTTATTAAATAAAATTCCAAATATGGTATTAAATTAGATTTAAACATTCACACTCATCCAAGCAATTATAGTAAGATAAAAACATTTAAAATTGGATAATTAAAAGTACTAATTATTTTTATAAATACAAAAAATATGGCAAACATTTTTATACTATTTCCACCCTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9116815 362 -   9889416 attgtacgtttttctgaggtatatgtgatattttgatacaggtatacaatgtgtaacgataaaatcagagtaattgggatattcattaacttaaact----tttttttatag---tgttgggaatattccaaatctcctctAACAAAAAGC--AGAAATATTGCTTTCTGTTTATTACATATA--TTTTTCATACCTTCAAAAATATTTATTAAATAAAATTCCAAATATGGCATTAAATTAGATTTAAACATTCAGACTCATCCAAGCAATTATAGTAAGATAAAAACATTAAAAATTGGATAATTAAAAGTACTAATTATTTTAATAAATACAAAAAGTACGGCAAACAATTTTGTACTATTTTCACCCTG
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5175675 2840 -  13750039 M
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=411117.000000
s hg38.chr21_GL383579v2_alt     41509 154 +    201197 ATCTAGAATTCCATACCTCCCACATCTCTCATTATCTTTTTTCTTAAGGTTGTTTTGGTTTTTCAAACAGCCCACATAACTTTTTCAGGATTATTTTTTTAATTGAATAAACATCTAAAGTGACAGGAACTTCCAAAAGTATAATGCTTTATCT
s panTro5.chr21               8663874 153 +  33445071 ATCTAGAATTCCATACCTCCCACATCTCTCATTATCTTTTTTCTTAAGGTTGTTTTGGTTTTTCAAACAGCCAACATAACTTTTTCAGGATTA-TTTTTTAATTGAATAAACATCTAAAGTGACAGGAACTTCCAAAAGTATAATGCTTTATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199391 153 +  46275980 ATCTAGAATTCCATACCTCCCACATCTCTCATTATCTTTTTTCTTAAGGTTGTTTTGGTTTTTCAAACAGCCAACATAACTTTTTCAGGATTA-TTTTTTAATTGAATAAACATCTAAAGTGACAGGAACTTCCAAAAGTACAATGCTTTATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8181954 152 -  13858734 ATCTAGAATTCCATACCTCCCACATCTGTCATTATCTTTTTTCTTAAGGTTGTTTTGGTTTTTCAAACAGCCCACATAACTTTTTCAGGATTA--TTTTTAATTGAATAAACATCTAAAGGGACAGGAACTTCCAAAAGTATAATGCTTTATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9228788 153 +  32716333 ATCTAGAATTCCATACCTCCCACATCTCTCATTATCTTTTTTCTTAAGGTTGTTTTGGTTTTTCAGACAGCCCATTTAACTTTTTCAGGATTA-TTTTTTAATTGAATAAACATCTAAAGTGAGAGGAACTTCCAAAAGTATAATGCTGTATCT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5178515 153 -  13750039 ATCTAGAATTCCATACCTGCCACATCTCTCATTATCTTTTTTCTTAAGGTTGCTTTGGTTTTTCAAACAGCCCACATAACTTTTTCAGGATTA-TTTTTTAATTGAATAAACATCTAAAGTGAGAGGAACTTCCAAAAGTATAATGCTTTATGT
i colAng1.NW_012120598v1    M 2840 C 0
s calJac3.chr21              26457888 153 +  50472720 GTCTAGAAATATATACCTGCTTCATATCTTATTATCTTTTTTCTTAATGTCGTTTTAGATATTCAAAGAGCTCACATAAGTTTATCAGGATTC-TTTTTTAATTGAATAAACAACTAAAGTGAGAAGAACTTCCAAAAGTTTAATACTTTATCT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13878811 150 -  14377064 GTGTAGAATTTTTTACCTGCCTCATATCTTATTACCTTTTCTCTTAATGTTGTTTTAGTTATTCAAAGAGCTCACATAAGTTTATCAGGATTC-TTTTTTAATTGAATAAACATCTAAAGTG---AGAACTTCCAAAAGTTTAATGCTTTATCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9117177 153 -   9889416 GTCTAGAATTTTATACCCGCCTCATATCTTATTATCTTTTTTCTTAATGTTGTTTTAGTTATTCAAAGAGCTCACATAAGTTTATCAGGATTC-TTTTTTAATTGAATAAACATCTAAAGTGAGAAGAACTTCCGAAAGTTTAATGCTTTATCT
i aotNan1.NW_018487195v1    C 0 I 314
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=6876.000000
s hg38.chr21_GL383579v2_alt     41663 2 +    201197 AG
s panTro5.chr21               8664027 2 +  33445071 AG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199544 2 +  46275980 AG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8182106 2 -  13858734 AG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9228941 2 +  32716333 AG
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5178668 2 -  13750039 AG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26458041 2 +  50472720 AG
i calJac3.chr21             C 0 I 287
s cebCap1.NW_016107322v1     13878961 2 -  14377064 AG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9117644 2 -   9889416 ag
i aotNan1.NW_018487195v1    I 314 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=29156.000000
s hg38.chr21_GL383579v2_alt     41665 9 +    201197 AAAGGTAAT
s panTro5.chr21               8664029 9 +  33445071 AAAGGTAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199546 9 +  46275980 AAAGGTAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8182108 9 -  13858734 AAAGGTAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9228943 9 +  32716333 AAAGGTAAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5178670 9 -  13750039 AAAGGTAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26458330 9 +  50472720 aaaGGTAAT
i calJac3.chr21             I 287 C 0
s cebCap1.NW_016107322v1     13878963 9 -  14377064 AAAGGTAAT
i cebCap1.NW_016107322v1    C 0 I 306
s aotNan1.NW_018487195v1      9117646 9 -   9889416 aaaGGTAAT
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=150498.000000
s hg38.chr21_GL383579v2_alt     41674 49 +    201197 TTCCATCTCTTTGAAAAATGTTCATGTGTTTaattatgaaacttgtaaa
s panTro5.chr21               8664038 49 +  33445071 TTCTATCTCTTTGAAAAATGTTCATGTGTTTaattatgaaacttgtaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199555 49 +  46275980 TTCTATCTCTTTGAAAAATGTTCATGTGTTTaattatgaaacttgtaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8182117 49 -  13858734 TTCTATCTCTTTGAAAAATGTTCATGTGTTTaattatgaaacttgtaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9228952 49 +  32716333 TTCTATCTCTTTGAAAAATGTTCATGTGTTTaattatgaaacttgtaaa
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5178679 49 -  13750039 TTCTATCTCTTTGAAAAATATTCATGTGTTTAATTATGAAACTTGTAAA
i colAng1.NW_012120598v1    C 0 I 436
s calJac3.chr21              26458339 49 +  50472720 TTCTGTCTCCTTGAAAAATGTTCATGTATTTAATTATGAAATTCGTAAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13879278 49 -  14377064 TTCTATCTCCTTGAAAAATGTTCATGTATTTAATTATGAAATTTGCAAA
i cebCap1.NW_016107322v1    I 306 C 0
s aotNan1.NW_018487195v1      9117655 49 -   9889416 TTCTATCTCCTTGAAAAATGTTCATGTATTTAATTATGAAATTTGTAAA
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=365569.000000
s hg38.chr21_GL383579v2_alt     41723 169 +    201197 acattcagaaatatactaaaaataatgcagcatccaatcatgtaacaattatgcggatttcaggaaatgttaatattagattatattttctCTTTCCTATTAAGGTATATctactatcttgtatttcttgagtacttatccatatataattttaaacttttatacaaat
s panTro5.chr21               8664087 168 +  33445071 acattcagaaatatactaaaaataatgcagcatcc-atcatgtaacaattatgcagatttcaggaaatgttaatattagattatattttctctttcctattaaggtatatctactatcttgtatttcttgagtacttatccatatataattttaaacttttatacaaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199604 168 +  46275980 acattcagaaatatactaaaaataatgcagcatcc-atcatgtaacaattatgcagatttcaggaaatgttaatattagattatattttctctttcctattaaggtatatctactatcttgtatttcttgagtacttatccatatataattttaaacttttatacaaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8182166 169 -  13858734 acattcagaaatatactaaaaataatgcagcatccaatcatgtaacaattatgcagatttcaggaaatgttaatattagattatattttctCTTTCCTATTAAGGTATATctactatcttgtatttcttgagtacttatccatatataattttaaacttttatacaaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9229001 169 +  32716333 acattcagaaatatactaaaaataacgcagcatccaatcatgtaacaattatgcagatttcaggaaatgttaatattagattatattttctCTTTCCTTTTAAGGTATATCTACTATCTTGTATTTCTTGAGTACTTATccatatataattttaaacttttatacaaat
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26458388 149 +  50472720 ATGTTCGGAAATATACTAAATATAATGCAGCCTTCAATCATGTAATAATTATGCAGATTTCAGGAAATATTAATAATAGATTATATTTTCTCTTATTTTTTATGGTATAGCCACTA--------------------TATTCATACATAATTTTAAACCTTTATACaaat
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13879327 168 -  14377064 ATGTTCAGAAATATACTAAAAACAATGCAGCATTCAATCATGTAATAATTATGCAGATTTCAGGAAATGTTAATATTAGATTATATTTTCTC-TATCTATTATGGTGCAGCCACTATCTTGTATTTCTTGAGTACTTATTCATACATAATTTTAAACTTTTATACAAAT
i cebCap1.NW_016107322v1    C 0 I 16
s aotNan1.NW_018487195v1      9117704 169 -   9889416 ATGTTCAGAAATATACTAAAAATAATGCAGCATTCAATCATGTAATAATTATGAAGATTTCAGGAAATATTAATATTAGGTTATATTTTCTCTTATCTATTATGTTACAGCCACTATCTTGTATTTCTTGAGTACTTATTCATACATAATTTTAAACTTTTATACAAAT
i aotNan1.NW_018487195v1    C 0 I 16
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=19390.000000
s hg38.chr21_GL383579v2_alt     41892 24 +    201197 gttttctcatatataacatataat
s panTro5.chr21               8664255 24 +  33445071 gttttttcatatataacatataat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199772 24 +  46275980 gttttttcatatataacatataat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8182335 24 -  13858734 gttttttcatatataacatataat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9229170 24 +  32716333 gttttttcatatataacatataat
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26458537 16 +  50472720 ----ttaaagattt---atataa-
i calJac3.chr21             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13879495 16 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9117873 16 -   9889416 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=1868513.000000
s hg38.chr21_GL383579v2_alt     41916 881 +    201197  
s panTro5.chr21               8664279 881 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22199796 880 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8182359 880 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9229194 886 +  32716333  
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26458553 892 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13879511 880 -  14377064  
i cebCap1.NW_016107322v1    I 16 C 0
s aotNan1.NW_018487195v1      9117889 870 -   9889416  
i aotNan1.NW_018487195v1    I 16 I 178
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=226626.000000
s hg38.chr21_GL383579v2_alt     42797 146 +    201197 cctttctacctttgttttcctagctgttgtgtagtgcaaagtgtattatctaaaaattatgcacatgtgtgctcatatgtctaggttttttattctgactgacctttttgtctatcAAAAAAATTTTCATCAATTATAATTATATG
s panTro5.chr21               8665160 146 +  33445071 CCTTTCTACCTTTGTTTTCCTAGCTGTTGTGTAGTGCAAAGTGTATTATCTAAAAATTATGCACATGTGTGCTCATATGTCTAGGTTTTTTATTCTGACTGACCTTTTTGTCTATCAAAAAAATTTTCATCAATTATAATTATATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22200676 146 +  46275980 CCTTTCTACCTTTGTTTTCCTAGCTGTTGTGTAGTGCAAAGTGTATTATCTAAAAATTATGCACATGTGTGCTCATATGTCTAGGTTTTTTATTCTGACTGACCTTTTTGTCTATCAAAAAAATTTTCATCAATTATAATTATATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8183239 146 -  13858734 CCTTTCTATCTTTGTTTTCCCAGCTGTTGTGTAGTGCAAAGTGTATTATCTACAAATTATGCACATGTGTGCTCATATATCTAGGTTTTTTATTCTGACTGACCTTTTTGTCTATCAAAAAAATTTTCATCAATTATAATTATATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9230080 146 +  32716333 tctttctatctttgttttcctagctgttgtgtagtgcaaagtgtattatctaaaaattatgcacatgtgtgctcatatgtctaggttttttattctgactgacctttttgtctatcAAAAAAATTTTCATCAATTATAATTATATG
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459445 132 +  50472720 ----------TCTGTTTTTCCAGCTAATGTGTAGTGCAATGTGTATTACCTAAAGATTATGCACCCTTGGGCTCATATGTCTAGACTTTCTATT----CTGATCTTTTTGTCTATCAAACAATCTTTCATCAAATATATTTATGTG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13880391 132 -  14377064 ----------TCTGTTTTTCCAGCTAATGTGTAGTGCAATGTGTATTACCTAAAGATTATGCACATTTGTGCTCATGTGTCTAGGCTTTCTATC----CTGACCTTTTTGTCCATCAAAAAATATTTCATCAAATATATTTATGTG
i cebCap1.NW_016107322v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9118759 178 -   9889416 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=3000.000000
s hg38.chr21_GL383579v2_alt     42943 2 +    201197 GG
s panTro5.chr21               8665306 2 +  33445071 GG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22200822 2 +  46275980 GG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8183385 2 -  13858734 GG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9230226 2 +  32716333 GG
i nomLeu3.chr25             C 0 C 0
s cebCap1.NW_016107322v1     13880523 2 -  14377064 gg
i cebCap1.NW_016107322v1    C 0 I 54
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9118759 178 -   9889416 I
e calJac3.chr21              26459577 0 +  50472720 C
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=834750.000000
s hg38.chr21_GL383579v2_alt     42945 937 +    201197  
s panTro5.chr21               8665308 939 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22200824 938 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8183387 933 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9230228 938 +  32716333  
i nomLeu3.chr25             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13880525  54 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9118759 178 -   9889416 I
e calJac3.chr21              26459577   0 +  50472720 C
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=64047.000000
s hg38.chr21_GL383579v2_alt     43882 62 +    201197 ggctgtgcatggtgactcacacctataatcttagcact---------------------ttgggaggctgaggagggcagatc
s panTro5.chr21               8666247 83 +  33445071 GGCTGGGCATGGTGACTCACACCTATAATCTTAGCACTGAGGAGGGCATTACTTAGCACTGAggaggctgaggagggcagatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22201762 83 +  46275980 GGCTGGGCATGGTGACTCACACCTATAATCTTAGCACTGAGGAGGGCATTACTTAGCACTGAggaggctgaggagggcagatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184320 62 -  13858734 ggctgcgcgtggtgactcacacctataatcttagcact---------------------ttgggaggctgaggagggcagatc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231166 62 +  32716333 ggctgagcatggtgactcatgcctgtaatcttagcact---------------------ttcagaggctgcggagggcagatc
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459577 62 +  50472720 ggccaggtgtggtggctcatgcctataatcccagcaat---------------------ttgggaagctgaggtgagcagatt
i calJac3.chr21             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13880525 54 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9118759 178 -   9889416 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=496100.000000
s hg38.chr21_GL383579v2_alt     43944 228 +    201197 cagatcacttgaggtcaggagtttgagaccagcctggccaatatgttgaaaccccgtct---ctaaaaatac-aaaaattcgccaggtttgttggtatgtgctggtaatcccagctactctggaggctgaggcaggagactcacttgaatcctggaggcagag----tttgcagtgaattgagactgtgccactgcactccagcctgggcaacagagtgagactctgtctcaaaat
s panTro5.chr21               8666330 228 +  33445071 cagatcacttgaggtcaggagtttgagaccagcctggccaacatgttgaaaccccatct---ctaaaaatac-aaaaattagccaggtttgttggtatgtgctggtaatcccagctactctggaggctgaggcaggagactcacttgaatcctggaggcagag----tttgcagtgaattgagactgtgccactgcactccagcctgggtaacagagtgagactctgtctcaaaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22201845 228 +  46275980 cagatcacttgaggtcaggagtttgagaccagcctggccaacatgttgaaaccccatct---ctaaaaatac-aaaaattagccaggtttgttggtatgtgctggtaatcccagctactctggaggctgaggcaggagactcacttgaatcctggaggcagag----tttgcagtgaattgagactgtgccactgcactccagcctgggcaacagagtgagactctgtctcaaaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184382 228 -  13858734 cagatcacttgaggtcaggagtttgagaccagactggccaacatgttgaaaccccgtct---ctaaaaatac-aaaaattagccaggtttgttggtatgtgctggtaatcccagctactctggaggctgaggcaggagactcacttgaatcctggaggcagag----tttgcagtgaattgagactgtgccactgcactccagcctgggcaacagtgtgagactctgtctcaaaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231228 229 +  32716333 cagatcacttgagatcaggagtttgagaccagcctggccaacatgttgaaaccccgtct---ctaaaaatacaaaaaattagccaggtgtattggtatgtgccggtaatcccagctactctggaggctgaggcaggagactcacttgaatcatggaggcagag----gttgcagtgagttgagattgtgccactgcactccagcctgggcaacagagtaagactctgtctcaaaat
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459639 229 +  50472720 ------agttgaagtcaggagtttaagaccagcctagccaacatgttaaaaccccgtctctactaaaactac-aaaaattagacaggcgcgttggtaggtacctgtaatcccagctactcgtgaggctgaggcaagagactcactggaatccaggaggcagacagaggttgcagcgagccgagattattccacttcactccaagctgggcgacagagtgagactctgtctcaaatt
i calJac3.chr21             C 0 I 4
s cebCap1.NW_016107322v1     13880579 231 -  14377064 cagatcagttgaggtcaggagttcaagaccagtctggccaacatgttgaaatcccgtctctactaaaaatac-aaaaattagacaggtgtgttggtaggtacctgtaatcccagctactcatgaggctgaggtaggaaacttactggaatccaggaggcagat----gttgcagtgagctgagattgtgccactgcactccagcctaggcgacagagtaagactctgtctcaaatt
i cebCap1.NW_016107322v1    I 54 I 3
s aotNan1.NW_018487195v1      9118937 232 -   9889416 cagatcaattgaggtcaggagttcaagaacagcctggccagcatgttgaaatcccgtctctactaaaaatacaaaaaattagacaagtgtgttggtaggtacctgtaatccaagctactcatgaggctgaggcaggaaactcactggaatccaggaggcagag----gttgcagtgagctgagattgtgccactgcactccagcctgggcgacagagtgagactctgtctcaaatt
i aotNan1.NW_018487195v1    I 178 I 102
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=44609.000000
s hg38.chr21_GL383579v2_alt     44172 42 +    201197 aaatttaaaaaaaaGCTTAAACTTTTAATGATTTTAATTTTA
s panTro5.chr21               8666558 42 +  33445071 aaaTTTTTTAAAAAGCTTAAACTTTTAATGATTTTAATTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202073 42 +  46275980 aaaTTTTTTAAAAAGCTTAAACTTTTAATGATTTTAATTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184610 36 -  13858734 aaaTTTTAAAAAAAGCTTAAACTTTTAATG------ATTTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231457 38 +  32716333 aaaTTTTAAAAAAAGCttaaacttttaatgattttaat----
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459872 40 +  50472720 aaaataaaataaaaGCTTAAACTTTTTATAATTTGAATTT--
i calJac3.chr21             I 4 C 0
s cebCap1.NW_016107322v1     13880813 42 -  14377064 aaaataaaacaaaaGcttaaactttgtttaattttaatttaa
i cebCap1.NW_016107322v1    I 3 I 55
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9119169 102 -   9889416 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=21927.000000
s hg38.chr21_GL383579v2_alt     44214 32 +    201197 AA---TAAAACAATTTAAATAAAACA--TTAAACTTT
s panTro5.chr21               8666600 32 +  33445071 AA---TAAAACATTTTAAATAAAACA--TTAAACTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202115 32 +  46275980 AA---TAAAACATTTTAAATAAAACA--TTAAACTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184646 32 -  13858734 AA---TAAAACAATTTAAATAAAACA--TTAAACTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231495 22 +  32716333 -------------tttaaataaaaca--ttaaacttt
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459912 37 +  50472720 AACTTTAAAATAATTTCATTTGTATGTTTTAATGTTT
i calJac3.chr21             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13880855 55 -  14377064 I
e canFam3.chr31              17999053 1001 +  39895921 I
e aotNan1.NW_018487195v1      9119169 102 -   9889416 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=8185.000000
s hg38.chr21_GL383579v2_alt     44246 12 +    201197 TGAATTTTAG-----AA
s panTro5.chr21               8666632 17 +  33445071 TGAAGTTTAGAAGTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202147 17 +  46275980 TGAAGTTTAGAAGTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184678 17 -  13858734 TGAAGTTTAGAAGTTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231517 17 +  32716333 taaagtttagaagttaa
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459949 12 +  50472720 CAAAGTTTAGAA-----
i calJac3.chr21             C 0 I 5
s canFam3.chr31              18000054 12 +  39895921 TGAATGAGACAA-----
i canFam3.chr31             I 1001 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13880855 55 -  14377064 I
e aotNan1.NW_018487195v1      9119169 102 -   9889416 I
e saiBol1.JH378168            8654590 80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=251905.000000
s hg38.chr21_GL383579v2_alt     44258 121 +    201197 TTTGAAATCAT----AAGTTTTTATTGACAACAAAGTATGCAGATAATTATACAGCTTAT-------------TTTGTTACTTTG-------------------------AGCCTTCTTTTGAGACTTTGTATGTGAGCAAA--TTGAAGCAGACTCTGTATGCT
s panTro5.chr21               8666649 121 +  33445071 TTTGAAATCAT----AAGTTTTTATTGACAACAAAGTATGCAGATAATTATACAGCTTAT-------------TTTGTTACTTTG-------------------------AGCCTTCTTTTGAGACTTCGTATGTGAGCAAA--TTGAGGCAGACTCTGTATGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202164 121 +  46275980 TTTGAAATCAT----AAGTTTTTATTGACAACAAAGTATGCAGATAATTATACAGCTTAT-------------TTTGTTACTTTG-------------------------AGCCTTCTTTTGAGACTTCGTATGTGAGCAAA--TTGAGGCAGACTCTGTATGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184695 121 -  13858734 TTCGAAATCAT----AAGTTTTTATTGACAACAAAGTATGCAGATAATTATACAGCTTAT-------------TTTGTTACTTTG-------------------------AGCCTTCTTTTGAGACTTTGTATGTGAGCAAA--TTGAAGCAGACTCTGTATGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231534 121 +  32716333 tttgaaatCGT----AAGTTTTTATTGACAACAAAGTGTGCAGATAATTATACAGTTTAT-------------TTTGTTACTTTG-------------------------AGCCTTCTTTTGAGACTTCGTATGTGAGCAAA--TTGAAGTAGACTCTGTATGCT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26459966 124 +  50472720 TTTGAAATCAT----AAGTTTTTATTGACAACCAAGTATTTGAATAATGATACAGTTTCT------------ATTTATTACTTTG-------------------------AGCCTTCTTTTGAGGCTTAGTATACATGCAACATTTGCAGTAGGCTGCATGAGCT
i calJac3.chr21             I 5 C 0
s cebCap1.NW_016107322v1     13880910 122 -  14377064 TTTTAAATCAT------GCTTTTATTGACAACCAAGTATATGAATAATGATAGAGTTTCT------------ATTTATTACTTTG-------------------------AGCCTTCTTTTGAGGCTTAGTACACGTGCAACATTTGAAGTAGGCTGCATAAGCT
i cebCap1.NW_016107322v1    I 55 C 0
s aotNan1.NW_018487195v1      9119271 124 -   9889416 TTTTAAATCAT----AAGTTTTTATTGACAACCAAATATTTGAATAATGATACAGTTTCT------------ATTTATTACTTTG-------------------------AGCCTTCTTTTGAGGCTTAGTATACATGCAACATTTGAAGTAGGCTGCATAAGCT
i aotNan1.NW_018487195v1    I 102 C 0
s canFam3.chr31              18000066 165 +  39895921 TCTAGAATCACAAACAAGTTTTCATTGACATCAAAGAAGGTGGATGGAAACACAGTTCTTTGGGTTTGGTTTGTTTGTTTGTTTGAAACACAGTTATTTGGATTACATCTAGCCTCCTCTTGTGGCTTGGTGTGTGGAGAACAATTGAAGTAGACCACACATGAC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e saiBol1.JH378168            8654590  80 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=163542.000000
s hg38.chr21_GL383579v2_alt     44379 50 +    201197 TATAGAAAATTGATATACTTCCATTAGTGAATGATTTGATTTATATTTAT
s panTro5.chr21               8666770 50 +  33445071 TATAGAAAATTGATATACTTCCATTAGTGAATGATTTGATTTATATTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202285 50 +  46275980 TATAGAAAATTGATATACTTCCATTAGTGAATGATTTGATTTATATTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184816 50 -  13858734 CATAGAAAATTGATATACTTCCATTAGTGAATGATTTGATTTATATTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231655 50 +  32716333 TATAGAAAATTGATATACTTCCATTAGTGAATGATTTGATTTATATTTAT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26460090 50 +  50472720 TATGGAAAATTGATATATTTCTATTAGTGAATGATTTGATTTATATTTAT
i calJac3.chr21             C 0 I 1
s saiBol1.JH378168            8654670 50 +  13128814 tatagtaaattgatatatttCTATTAGTGAATGATTTGATTTATATTTAT
i saiBol1.JH378168          I 80 I 1
s cebCap1.NW_016107322v1     13881032 50 -  14377064 TACGGAAAATTGATGTATTTCTATTAGTGAGTGATTTAATTTATATTTAT
i cebCap1.NW_016107322v1    C 0 I 819
s aotNan1.NW_018487195v1      9119395 50 -   9889416 TATGGAAAATTGATATATTTCTATTAGTGAATGATTTGATTTATATTTAT
i aotNan1.NW_018487195v1    C 0 I 1
s canFam3.chr31              18000231 49 +  39895921 TATAACAAATGCACATATTCTTGTTA-TGAAGGATTTAGATTGTACTTAC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=430.000000
s hg38.chr21_GL383579v2_alt     44429 1 +    201197 A
s panTro5.chr21               8666820 1 +  33445071 C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202335 1 +  46275980 C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184866 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231705 1 +  32716333 C
i nomLeu3.chr25             C 0 C 0
s canFam3.chr31              18000280 1 +  39895921 C
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13881082 819 -  14377064 I
e aotNan1.NW_018487195v1      9119445 1 -   9889416 I
e calJac3.chr21              26460140 1 +  50472720 I
e saiBol1.JH378168            8654720 1 +  13128814 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C

a score=177701.000000
s hg38.chr21_GL383579v2_alt     44430 48 +    201197 ATTTGTTAATATTTTACAAATTGTCTATATCCTTATTGCTTTGTGCTT
s panTro5.chr21               8666821 48 +  33445071 ATTTGTTAATATTTTACAAATTGTCTATATCCTTATTGCTTTGTGCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202336 48 +  46275980 ATTTGTTAATATTTTACAAATTGTCTATATCCTTATTGCTTTGTGCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184867 48 -  13858734 ATTTGTTAATATTTTACAAATTGTCTATATCCTTATTGCTTTGTGCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231706 48 +  32716333 ATTTGTTAATATTTTACAAATTATCTATATCCTTATTGCTTTGTGCTT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26460141 48 +  50472720 ATTTGTTAATATTTTGCAACTTATCTATATCTTTATTGCTTTGTGCTT
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8654721 48 +  13128814 ATTTGTTAATATTTTACAACTTATCTATATCTTTATTGCTTTGTGCTT
i saiBol1.JH378168          I 1 C 0
s cebCap1.NW_016107322v1     13881901 48 -  14377064 ATTTGTTAATATTTTACAACTTATCTATATCTTTATTGCTTTGTGCTT
i cebCap1.NW_016107322v1    I 819 C 0
s aotNan1.NW_018487195v1      9119446 48 -   9889416 ATTTGTTAATATTTTACAACATATCTATATCTTTATTGCTTTGTGCTT
i aotNan1.NW_018487195v1    I 1 C 0
s canFam3.chr31              18000281 48 +  39895921 Atttgttaatatttttcaagttatttgtatcctcactgctttgtcctt
i canFam3.chr31             C 0 I 5079
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=714959.000000
s hg38.chr21_GL383579v2_alt     44478 270 +    201197 tgatgtggtttggatatgtgtccctaaccaaatctcatgttgaattttaatctctaaagttggaggtgggggcctggtgaaagctgattggatcatggggatggatttccccttttggtgcttttctggagacagatttctcacaag-atctgg--ttgtttaaaagtatgtggcacctccaccttctctctctttctcctgcccccaggcatgtgaagtgccagctccccacttcaccctccaccacgattgtaaatattctgagacctccc
s panTro5.chr21               8666869 273 +  33445071 tgatgtggtttggatatgtgtccctaaccaaatctcatgttgaattttaatctctaaagttggaggtgggggcctggtgaaagctgattggatcatggggatggatttccccttttggtgcttttctggagacagatttctcacaagaatgtggcaccttctcaaagtatgtggcacctccaccttctctctctttctcctgcccccaggcatgtgaagtgccagctccccacttcaccctccaccacgattgtaaatattctgagacctccc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202384 273 +  46275980 tgatgtggtttggatatgtgtccctaaccaaatctcatgttgaattttaatctctaaagttggaggtgggggcctggtgaaagctgattggatcatggggatggatttccccttttggtgcttttctggagacagatttctcacaagaatgtggcaccttctcaaagtatgtggcacctccaccttctctctctttctcctgcccccaggcatgtgaagtgccagctccccacttcaccctccaccacgattgtaaatattctgagacctccc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8184915 265 -  13858734 tgatgtggtttggatatgtgtccctaaccaaatctcatgttgaattttaatctctaaagttggaggt-ggggcctgatgaaagctgattggatcatggggatggatttccccttttggtgcttttctggagacagatttctcacaag-atctgg--ttgtttaa----atgtggcacctccaccttctctttctttctcctgcccccaggcatgtgaagtgccagctccccacttcaccctccaccacgattgtaaatattctgagacctccc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9231754 270 +  32716333 tgatgtggtttggatatgtgtccctaaccaaatctcattttgaattttaatctctaatgttggaggcaggggcctggcaaaagctgattggatcatgcggatggatttccccttttggtgcttttctggagacagatttctcacaag-atctgg--ttgtttaaaagtatgtggcacctccaccttctctctcttcctcctgctcccaggcatgtgaagtgccagctccccacttcaccctccaccacgattgtaaattttctgagacctccc
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26460189 264 +  50472720 tgatatagtttggatatgtgtccccaaccaaacctcatgttgaattcaaatctctaat-ttggaggt-ggggcctggtgggagctgattggatcatgggggtggatgtcttcttttggtgctttc---ctgggagatttttcaccag-atcttg--ttgtttaaaagtgtgtggcacctccacattctctctcttccttctgctcctgggtatgtgaagtgccagctcctc-cttcaccttccaccatgattgtaaatttcctgagacctccc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8654769 267 +  13128814 tgatgtaatttggatatatgtccccagtgaaatctcatgttgagttttaatctctaat-ttgaaggt-ggggcctggtgggagctgattggatcatgggggtggatgtcctcttgtggtgcttttctgctgatagatttttcacaag-atctga--ttgcttaaaagtgtgtggcacctccacattctctctctttcttctgttcccgggcatgcgaagtgccagctcctc-cttcaccttccaccatgatggtaaatttcctgagacctccc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13881949 267 -  14377064 tgatgtaatttggatatgtgtccccaacgaaatctcatattgaatttttatctctaat-ttgaaggt-ggggcctggtgggagctgattggatcatgggggtggatgtcctcttttggtgcttttctgctgatagatttttcacaac-atctga--ttgtttaaaagtgtgtggcacctccacattctctctcttccttctgctcctgggcatgtgaaatgccagctcctg-cttcaccttccaccatgattgtaaatgtcccgagacctccc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9119494 267 -   9889416 tgatgtaacttggatgtatgtccccaacaaaatctcatgttgaattttaatctctaat-ttgaatgt-ggggcctggtgggagctgactggatcacggggatggatgtcctcttttggtgcttttctgctgatagatttttctcaag-atctga--ttgtttaaaagtgtgtggcacctccacactctctctcttccttctgatcctgggcatgtgaagtgccagctcctc-ctttaccttccaccatgattgtaaatgtcccgagacctcct
i aotNan1.NW_018487195v1    C 0 I 22
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=49510.000000
s hg38.chr21_GL383579v2_alt     44748 20 +    201197 cagaagctgagcagatgcca
s panTro5.chr21               8667142 20 +  33445071 cagaagctgagcagatgcca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202657 20 +  46275980 cagaagctgagcagatgcca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8185180 20 -  13858734 tggaagctgagcagatgcca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9232024 20 +  32716333 cagaagctgagcagatgcca
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26460453 20 +  50472720 cagaagctgagcagaggcca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8655036 20 +  13128814 cagaagctgagcagaggcca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13882216 20 -  14377064 cagaagctgagcagatgcca
i cebCap1.NW_016107322v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9119761 22 -   9889416 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C

a score=822133.000000
s hg38.chr21_GL383579v2_alt     44768 292 +    201197 gcatcatgcttcctgtgcattctgtggaatcatgagccaattaaaccctgtttctttataaatggcccagtctaaggtatttctttttagcaatgcaaaattgaactaataGAgaaaattggtaccgagcagtggggcattgctataaagatgcgtgaaaatgtggaagtagctttggaactgggtaacaggaggaggttggaacaatgtggagcgctcagaaaaa---agacaagaagatgagggaaagtatggaacttcctaaagacttgttaattgctgtgactgaaatgct
s panTro5.chr21               8667162 292 +  33445071 gcatcatgcttcctgtgcatcctgtggaatcatgagccaattaaaccctgtttctttataaatggcccagtctaaggtatttctttttagcaatgcaaaattgaactaatacagaaaattggtaccgagcagtggggcattgctataaagatgcctgaaaatgtggaagtagctttggaactgggtaacaggaagaggttggaacaatgtggagtgctcagaaaaa---agacaagaagatgagggaaagtatggaacttcctagagacttgttaattgctgtgactgaaatgct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202677 292 +  46275980 gcatcatgcttcctgtgcatcctgtggaatcatgagccaattaaaccctgtttctttataaatggcccagtctgaggtatttctttttagcaatgcaaaattgaactaatacagaaaattggtaccgagcagtggggcattgctataaagatgcctgaaaatgtggaagtagctttggaactgggtaacaggaagaggttggaacaatgtggagtgctcagaaaaa---agacaagaagatgagggaaagtatggaacttcctagagacttgttaattgctgtgactgaaatgct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8185200 292 -  13858734 gcatcatgcttcctgtgcatcctgtggaatcatgagccaattaaaccctgtttctttataaatgacccagtctaaggtatttctttttagcaatgcaaaattgaactaacacagaaaattggtactgagcagtggggcattgctataaagatgcctgaaaatgtggaagtagctttggaactgggtaacaggaggaggttggaacaacgtggagtgctcagaaaaa---agataagaagatgagggaaagtatggaacttcctagagacttgttaattgctgtgactgaaatgct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9232044 292 +  32716333 gcatcatgcttcctgtgcatcctgtggaatcatgagccaattaaaccctgtttctttataaatggcccagtctaaggtatttctttttagcaatgcaaaattgaactaatacagaaaattggtaccgagcagtggggcattgctataaagatacctgaaaatgtggaagtagctttggaactgggtaacaggcggaggttggaacaatgtggagtgctcagaaaaa---agataagaagatgagggaaagtttggaacttcctagagacttgttaattgttgtgactgaaatgct
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26460473 285 +  50472720 gcatcttgcttcctatgcagtctgtgaaaccatgagtcaattaaatctcttttctttataaattacccagtctaaggtatttttttagatcagggtaagattgaattaatacagaaaattggtaccaaggagtagggcattgctaaaaagagatctgaaaatgtggaagcagctttggaactgggtaacaggcagaggtcagaacaatgtggagcactcagaaaaacatacataagaagatgagggaaagtttggaacttcctaaaaac----------ttgtgaataaaatgct
i calJac3.chr21             C 0 I 2083
s saiBol1.JH378168            8655056 291 +  13128814 gcatcatgcttcctatgcagtctgtggaaccatgagtcaattaaatctcttttctttataaattacccagtctaaggtattactttacagcagtgtaagattgaactaatacagaaaattggtaccaaggagtggggcattgctataaagagatctgaaaatgtggaggcagctttggaactgggtaacaggcagaggtcagaacagtgtggagcactcagaaaa----acataagaagatgaggaaaagtttggaacttcctagaaacttgttagctgttgtgaatgaaatgct
i saiBol1.JH378168          C 0 I 2
s cebCap1.NW_016107322v1     13882236 291 -  14377064 gcatcatgcttcctatgcagtctgtggaagcataagtcaattaaatctcttttctttataaattacccagtctaaggtattactttatagcagggtaagattgaactaatacagaaaattggtaccaaggagtggggcattgctataaagagatctgaaaatgtggaagcagctttggaactgggtaacaggcagaggtcggagcaatgtggagcactcaggaaa----acataagaagatgagggaaagtttggaacttcctagaaacttgttaattgttgtgaatgaaatgct
i cebCap1.NW_016107322v1    C 0 I 2
s aotNan1.NW_018487195v1      9119783 291 -   9889416 gcatcatgcttcctatgcagtctatggaaccatgagtgaattaaatctcttttctttataaattacccagtctaaggtattactttatagcagggtaagattgaactaatacagaaaatgggtaccaaggaatggagcattgctacaaagacacctgaaaatgtggaagcagctttggaactgggtaacaggcagaggtcagaacaatgtggagcactcagaaaa----acataagaagatgagggaaagtttggaacttcctagaaacttgttaattgttgtgaatgaaatgct
i aotNan1.NW_018487195v1    I 22 I 2
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=2557522.000000
s hg38.chr21_GL383579v2_alt     45060 954 +    201197  
s panTro5.chr21               8667454 954 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22202969 954 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8185492 954 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9232336 951 +  32716333  
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26462841 918 +  50472720  
i calJac3.chr21             I 2083 C 0
s saiBol1.JH378168            8655349 943 +  13128814  
i saiBol1.JH378168          I 2 C 0
s cebCap1.NW_016107322v1     13882529 936 -  14377064  
i cebCap1.NW_016107322v1    I 2 C 0
s aotNan1.NW_018487195v1      9120076 927 -   9889416  
i aotNan1.NW_018487195v1    I 2 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=624700.000000
s hg38.chr21_GL383579v2_alt     46014 294 +    201197 taggagatccaccaatagcttgtaccatgtgcctagaaaagccacagacactcaatgctagcccatgagagcaaccatgggacctgaaccctgcaaagccacaggacagagctgtccaaggccttgggaacccaccccttgcaccaa------------tatatcccgcatgtgagacatggagtcaaagaagattatttcggagcttgaagatttaa----tgactac-ctgcagtcagtttcacacttgcacaggccctgtagc-ccctttatttggctgatttctcccttttggaaagagagtatttac
s panTro5.chr21               8668408 298 +  33445071 taggagatccaccaatagcttgtaccatgtgcctagaaaagccacagacactcaatgctagcccatgagagcaaccatgggacctgaaccctgcaaagccacaggacagagctgtccaaggccttgggaacccaccccttgcaccaa------------tatgtcctgcatgtgagacatggagtcaaagaagattattttggagcttgaagatttaatgactgactac-ctgcagtcagtttcacacttgcacaggccctgtagc-ccctttatttggctgacttctcccttttggaaagagagtatttac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22203923 298 +  46275980 taggagatccaccaatagcttgtaccatgtgcctagaaaagccacagacactcaatgctaacccatgagagcaaccatgggacctgaaccctgcaaagccacaggacagagctgtccaaggccttgggaacccaccccttgcaccaa------------tatgtcctgcatgtgagacatggagtcaaagaagattattttggagcttgaagatttaatgactgactac-ctgcagtcagtttcacacttgcacaggccctgtagc-ccctttatttggctgacttctcccttttggaaagagagtatttac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8186446 293 -  13858734 taggagatccaccaatagcttgtaccatgtgcctagaaaagccacagacactcaatgctagcccatgagagcaaccatgggacctgaaccctgcaaagccacaggacagagctgtccaaggccttgggaacccaccccttgcaccaa------------tatgtcccgcatgtgagacttggagtcaaagaagattatttcggagcttgaagatttaa----tgactac-ctgcagtcagtttcacacttgcacaggccttgtagc-ccctttatttggctgatttctcccttttggaaagaga-tatttac
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26463759 294 +  50472720 ----agatttactaatagcttgtaccatgtgcctggaaaagccacagacactcaatgtgagtccatgagagcaaccatgatgtctg-accctgcaaagccccaggttagagctgtccaaggccttcagaacccaccccttgcacccaagtgcacccatgtgtgccatgcatgtgagacatggagtcaaaggaaattattttggaacttaaagatttaa----tgactacactgcagtcagtttcaaacttgcacagac---------cccttcttttggctgattgttaccttttggaaagacagtatttac
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8656292 304 +  13128814 ----agatccaccaatagcttataccatgtgcctggaaaagccacagacactcaatgtgagtccatgagcgcaaccatgatgtctgaaccctgcaaagccgcaggatggagctgtccaaggccttcagaacccactccttgcacccaggtacacccatgtgtgcccagcatgtgagacatagagtcaaaggaaattattttggaagttaatgatttaa----tgactacgctgcagtcagtttcaaacttgcacaggccctatagctcccttcttttggctgatttttcccttttggaaagacagtgtttac
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13883465 302 -  14377064 ----agatccaccaatagcttgtaccacatgcctggaaaagccacagacactcaatgtgagtccatgagaacaaccatgatgtctgaaccctgcaaagccacaggagagagctgtccaaggccttcagaacccaccccttgcacccaagtacacccatgtatgccctgcatgtgagaca--gagtcaaaggaaactattttggaacttaaggatttaa----tgactacactgcagtcagtttcaaacttgcacaggccctatagcccacttcttttggctgatttttcccttttggaaagacagtatttac
i cebCap1.NW_016107322v1    C 0 I 13
s aotNan1.NW_018487195v1      9121003 303 -   9889416 ----agatccaccaacagcttgtaccatgtgcctggaaaagccacagacactcagtgtgagtccatgagagcaaccatgatgtcta-aacctgcaaaaccacaggatagagctgtccaaggccttcagaacccaccccttgcacccaagtacacccatgtgtgccctgcatgtgagacatagagtcaaaggaaattattttggaacttaaagatttaa----tgactacactgcagtcagtttcaaacttgcacaggccctatagcccccttcttttggctgatttttcccttttggaaagacagtatttac
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9233287   0 +  32716333 C

a score=21817.000000
s hg38.chr21_GL383579v2_alt     46308 16 +    201197 ctaattcctaaacctg
s panTro5.chr21               8668706 16 +  33445071 ctaattcctaaatctc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204221 16 +  46275980 ctaattcctaaacctc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8186739 16 -  13858734 ctaattcctaaacctc
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26464053 16 +  50472720 ctaatgcctatacccc
i calJac3.chr21             C 0 I 1
s saiBol1.JH378168            8656596 16 +  13128814 ctaatgtctatacccc
i saiBol1.JH378168          C 0 I 1
s aotNan1.NW_018487195v1      9121306 16 -   9889416 ctaatgtctatacccc
i aotNan1.NW_018487195v1    C 0 I 1
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13883767 13 -  14377064 I
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C
e nomLeu3.chr25               9233287  0 +  32716333 C

a score=807859.000000
s hg38.chr21_GL383579v2_alt     46324 360 +    201197 cattgtatcgtgggagtaactaac-ttttttttttattttacaggctcataggtggaaggaccttgctttgtctcagatgagacttgggactctggacatctgagttaatgctggattaagactttggggaactggtgggaaggcaaggttgtattttgaaatatgagaagggcatgagattcaggagggaccaggggaagaataatatggtttggatttgtgtccccacccaaatctcatgttgaattgtaatctctaatgttggaggtggggcctggtaggagggcactggatcatgggggtgaatttccccctttggtgctattattatgataaagttctaacaagatttggctgttt
s panTro5.chr21               8668722 361 +  33445071 cattgtatcttgggagtaactaactttttttttttattttacaggctcataggtggaaggagcttgctttgtctcagatgagacttgggactctggacatctgagttaatgctagattaagactttggggaactggtgggaaggcaaggttgtattttgaaatatgagaagggcatgagattcaggaggggccaggggaagaataatatggtttggatttgtgtccccacccaaatctcatgttgaattgtaatctctaatgttggaggtgggacctggtaggagggcactggatcatgggggtgaatttccccctttggtgctattattatgatagagttctaacaagatttggctgttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204237 360 +  46275980 cattgtatcttgggagtaactaac-ttttttttttattttacaggctcataggtggaaggagcttgctttgtctcagatgagacttgggactctggacatctgagttaatgctagattaagactttggggaactggtgggaaggcaaggttgtattttgaaatatgagaagggcatgagattcaggaggggccaggggaagaataatatggtttggatttgtgtccccacccaaatctcatgttgaattgtaatctctaatgttggaggtgggacctggtaggagggcactggatcatgggggtgaattgccccctttggtgctattattatgatagagttctaacaagatttggctgttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8186755 360 -  13858734 cattgtatcttgggagtaactaac-ttttttttttattttacaggctcataggtggaaggaccttgctttgtctcagatgagacttgggactctggacatctgagttaatgctggattaagactttggggaactggtgggaaggcaaggttgtattttgaaatatgagaagggcatgagattcaggaggggccaggggaagaataatatggtttggatttgtgtccccacccaaatctcatattgaattgtaatctctaatgttggaggtgggacctggtaggagggcactggatcatgggggtgaatttccccctttggtgctattattatgatagagttctaacaagatttggctgttt
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26464070 357 +  50472720 ccttgtatcttctaagtaacttac--ttgctttttatttcacagtcttataggtggaaggaacttgccttgtttcaaatgagacttgggactttggacatctgagttaatgctgaattaagactttgagggactggtgggaaggcaa-attgtatttggaaatacaagaaggtcatgagatttaggaggggaaaggggaagaataatatggtttggatttatgtccctgcctaaatttcatgttgaattgtcatc-ctaacattggaggtaggacccggtaggaagacattggatcttgggggtaaatttccccctttggtgctataattgtgatagagttctcacaagatttgcctgctt
i calJac3.chr21             I 1 I 137
s saiBol1.JH378168            8656613 358 +  13128814 cagtgtatcttgggagtaacttac--ttgttttttattttatagtcttataggtggaaggaacttgccttgtttcaaatgagacttgagactttggacatctgagttaatgctggattaagactttgagggactggtgggaaggcaagattgtattttgaaatataagaaggtcatgagatttaggagggggaaggggaagaataatatggtttggatttatgtccctgcctaaatctcatgttgaattgtcatc-ctaacgttggaggtgggacctggtaggaagacattggatctcggtggtgaatttccttctttggtgctgtaattgtgatagagttctcacaagatttgcctgctt
i saiBol1.JH378168          I 1 C 0
s cebCap1.NW_016107322v1     13883780 358 -  14377064 cattgtatcttgggagtaacttac--ttgttttttattttacagtcttataggtggaaggaacttgccttgtttcagatgagacttgggactttggacatctgagttaattctggattaagactttgagggactggtgggaaggcaagattgtatttcgaaatataagaaggtcatgagatttaggagggtgaaggggaagaataatatggcttgaatttatgtccccgcctaaatctcatgttgaattgtcatc-ctaacgttggaggtgggacttagtaggaagacattggatcttgggggtgaatttccccctttggtgctataattgtgatagagttctcacaagatttgcctgctt
i cebCap1.NW_016107322v1    I 13 C 0
s aotNan1.NW_018487195v1      9121323 358 -   9889416 cattgtatcttgggagtaacttac--ctgttttttattttacagtcttataggtggaaggaacttgccttgtttcagatgagacttgggactttggacatctgagttaatgctggattaagactttgagggactggtgggaaggcaagattgtattttgaaatataagaaggtcatgagatttaggagggggaaggggaagaTtaatacggtttggatttatgtccctgcctaaatctcatgttgaattgtcatc-ctaacgttggaggtgggacctggtaggaagacattggatcttgggggtgaatttccccctttggtgctataattgtgatagagttcttgcaagatttgcctgctt
i aotNan1.NW_018487195v1    I 1 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9233287   0 +  32716333 C

a score=8460.000000
s hg38.chr21_GL383579v2_alt     46684 5 +    201197 gaaaa
s panTro5.chr21               8669083 5 +  33445071 gaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204597 5 +  46275980 GAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187115 5 -  13858734 gaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s saiBol1.JH378168            8656971 5 +  13128814 gaaaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13884138 5 -  14377064 gaaaa
i cebCap1.NW_016107322v1    C 0 I 151
s aotNan1.NW_018487195v1      9121681 5 -   9889416 gtaaa
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e calJac3.chr21              26464427 137 +  50472720 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C
e nomLeu3.chr25               9233287 0 +  32716333 C

a score=11512.000000
s hg38.chr21_GL383579v2_alt     46689 11 +    201197 agtgtatggta
s panTro5.chr21               8669088 11 +  33445071 agtgtatggta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204602 11 +  46275980 AGTGTATGGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187120 11 -  13858734 agtgtatggta
i gorGor5.CYUI01015003v1    C 0 C 0
s saiBol1.JH378168            8656976 11 +  13128814 attgttcggta
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9121686 11 -   9889416 attgtttggta
i aotNan1.NW_018487195v1    C 0 I 131
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13884143 151 -  14377064 I
e canFam3.chr31              18000329 5079 +  39895921 I
e calJac3.chr21              26464427 137 +  50472720 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C
e nomLeu3.chr25               9233287  0 +  32716333 C

a score=4862.000000
s hg38.chr21_GL383579v2_alt     46700 6 +    201197 CCTCcc
s panTro5.chr21               8669099 6 +  33445071 CCTCcc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204613 6 +  46275980 CCTCcc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187131 6 -  13858734 cctccc
i gorGor5.CYUI01015003v1    C 0 C 0
s saiBol1.JH378168            8656987 6 +  13128814 tcttcc
i saiBol1.JH378168          C 0 I 123
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13884143 151 -  14377064 I
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9121697 131 -   9889416 I
e calJac3.chr21              26464427 137 +  50472720 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C
e nomLeu3.chr25               9233287 0 +  32716333 C

a score=1808.000000
s hg38.chr21_GL383579v2_alt     46706 2 +    201197 tg
s panTro5.chr21               8669105 2 +  33445071 tg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204619 2 +  46275980 tg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187137 2 -  13858734 tg
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26464564 2 +  50472720 ta
i calJac3.chr21             I 137 C 0
s saiBol1.JH378168            8657116 2 +  13128814 ta
i saiBol1.JH378168          I 123 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13884143 151 -  14377064 I
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9121697 131 -   9889416 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C
e nomLeu3.chr25               9233287 0 +  32716333 C

a score=12975.000000
s hg38.chr21_GL383579v2_alt     46708 9 +    201197 gaaccataa
s panTro5.chr21               8669107 9 +  33445071 gaaccataa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204621 9 +  46275980 gaaccataa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187139 9 -  13858734 gaaccataa
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26464566 9 +  50472720 aaaccatgt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8657118 9 +  13128814 gaaccatgt
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9121828 9 -   9889416 gaaccatgt
i aotNan1.NW_018487195v1    I 131 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595 0 +  21915920 C
e macNem1.NW_012015021v1      4879203 0 -  30496662 C
e macFas5.chr3              167255328 0 - 192294377 C
e rheMac8.chr3              160618350 0 - 185818997 C
e cebCap1.NW_016107322v1     13884143 151 -  14377064 I
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156 0 +   7543664 C
e chlSab2.chr2               19904289 0 -  90373283 C
e nomLeu3.chr25               9233287 0 +  32716333 C

a score=781182.000000
s hg38.chr21_GL383579v2_alt     46717 360 +    201197 gccaattaaacttcttttctttataaattacccagtctctggtagttcttcatagcaatgcaagaatggacaaatacaTGCTTACTTAGTCTATCACTTTTAGTGAGAATTAGGCTAACCTATCTCACCACAATTTAGGATATATCAGTATGCCTTTAAATAGTTGTCC----ATTTATTTTCTTTATATATTTTGGGGCAATATTGTTTAATGAATAATGTACCAAGAGTCCAACCCTGTCCTTGCATAGTTCTCATTTTTTCTTTAATTGATGATCTACTAGCAGTTATAATGTTTTCATTTTTGGTAATGTTGGGAGGAATATTGACTTAAAAAATACAATCTATTGTATATCTGTTATaa
s panTro5.chr21               8669116 363 +  33445071 gccaattaaacttcttttctttataaattacccagtctctggtagttcttcatagcaatgcaagaatggaaaaatacaTGCTTACTTAGTCTATCACTTTTAGTGAGAATTAGGCTAACCTATCTCACCACAATTTAGGATATATCAGTATGTCTTTAAATAGTTGTCCATTTATTTATTTTCTTTACATATTTTGGGGCAATATTGTTTAATGAATAATGTACCAAGAGTCCAACCCTGTCCTTGCATAGTTCTCATTTTTTCTTTAATTGATGATCTACTAGCAGTTATAATGTTTTCA-TTTTGGTAATGTTGGGAGGAATATTGACTTAAAAAATACAATCTATTGTATATCTGTTATaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204630 363 +  46275980 gccaattaaacttcttttctttataaattacccagtctctggtagttcttcatagcaatgcaagaatggaaaaatacaTGCTTACTTAGTCTATCACTTTTAGTGAGAATTAGGCTAACCTATCTCACCACAATTTAGGATATATCAGTATGTCTTTAAATAGTTGTCCATTTATTTATTTTCTTTACATATTTTGGGGCAATATTGTTTAATGAATAATGTACCAAGAGTCCAACCCTGTCCTTGCATAGTTCTCATTTTTTCTTTAATTGATGATCTACTAGCAGTTATAATGTTTTCA-TTTTGGTAATGTTGGGAGGAATATTGACTTAAAAAATACAATCTATTGTATATCTGTTATaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187148 360 -  13858734 gccaattaaacttcttttctttataaattacccagtctctggtagttcttcatagcaatgcaagaatggacaaatacaCGCTTACTTAGTCTACCACTTTTAGTGAGAACTAGGCTAACCTATCTCACCACAATTTAGGATATATCAGTATGTCTTTAAACAGTTGTCC----ATTTATTTTCTTTATATATTTTGGGGCAATATTGTTTAATGAATAATGTACCAAGAGTCCAACCCTGTCCTTGCATAGTTCTCATTTTTTCTTTAATTGATGATCTACTAGCAGTTATAATGTTTTCATTTTTGGTAATGTTGGGAGGAATATTGACTTAAAAAATACAATCTATTGTATATCTGTTATaa
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26464575 358 +  50472720 gccacttaaacttcttttctttataaattacctagtctcaggtagttctttatagcaattcaagaatggacagatacaTGCTTACTTAGCCTATCACTTTCAGAGAGAATTAGGCTAACCTGTCTCACCACAGTTTAGGATATATCAGTCTGTTTTTAAATAGTTTTTC----ATTTATTTTCTTTATCTATTTTGGGGCATTATTGCTTAATGAATAATGTCCAAAGTGTTGAACACAGTTCTTCTGTATTTCTCATTTGTTCTTTAATTGATAACCTACTAGCAATTATAATGGTTTCA-TTTTGGTAATGTTGAGAGAACTATTGACTT-AAAAATAGAATCTATTGTAAATTTGTTATAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8657127 357 +  13128814 gccacttaaacctgttttccttataaattacccagtctcaggtagttctttatagcaatgcaagaatggacaggtacaTGCTTACTTAGCCTATCACGTTCAGAGAGAATTAGGCTAACCTGCCTCACCACAGTTTAGGATATATCAGTCTGTTTTTAAATAGTTTTTC----ATTTATTTTCTTTATCTATTTTGGGGAGTTATTGCTTAATGAATAATGTACAAAGTGTCCAACACAGTCCTTGTGTATATCTCATTTGTTCTTTAATTGATAACCTGCTAGCAATTATAATGGTTTCA-TTTTGGTAATGTTGAGAGAAATATTGCCTT--AAAATAGAATCTATTGTAAATTTGTTATAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13884294 358 -  14377064 gccacttaaacctcttttctttataaattacccagtttcaggtagttctttatagcaatgcaagaatggacagatataTGCTTACTTAGCCTATCACGTTCAGAGAGAATTAGGTTAACCTGTCTCACCACAGTTTAGGATATATCAGTCTGTTTTTAAATAGCTTTTC----ATTTATTTTCTTTATCTATTTTGGGGCATTATTGCTTAATGAATAACATACAAAGTGTCAAACACAGTCCTTGTGTATTTCTCATTTGTTCTTTAATTGATAACCTGCTAGCAATTATAATGATTTCA-TTTTGGTAATGTTGAGAGAAATATTGACTT-AAAAATAGAATCTACTGTAAATTTGTTATAA
i cebCap1.NW_016107322v1    I 151 C 0
s aotNan1.NW_018487195v1      9121837 358 -   9889416 gccacttaaacctcttttctttataaatcacccagtctcaggtagttctttatagcaatgcaagaatggacAGAAACATGCTTACTTAGCCTATCACTTTCAGAGACAATTAGGCTAACCTGTCTTACCACAGTTTAGGATATATCAGTCTGTTTTTAAATAGTTTTTC----ATTTATTTTCTTTATCTATTTTGGGGCATTATTGCTTAATGAATAACGTACAAAGTGTCGAATACAGTCCTTTTGTATTTCTCATTTGTTCTTTAATTGATAACCTACTAGCAATTATAATGGTTTCA-TTTTGGTAATGTTGAGAGAAATATTGACTT-AAAAATAGAATCTATTGTAAATTTGTTATAA
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9233287   0 +  32716333 C

a score=65393.000000
s hg38.chr21_GL383579v2_alt     47077 121 +    201197 atgaaaatacagcctatcaatatttctgggatgcagctaaagctgtgcttaaagaaaaatctatagtcctataggtttctgttacacaaaattaaaatctaaaaacagtaacctcagtacc-----
s panTro5.chr21               8669479 126 +  33445071 atgaaaatacagcctatcaatatttctaggatgcagctaaagctgtgcttaaagaaaaatctacagtcctataggtttctgttacacaaaattaaaatctaaaaacaataatctcagtacctattt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22204993 126 +  46275980 atgaaaatacagcctatcaatatttctaggatgcagctaaagctgtgcttaaagaaaaatctacagtcctataggtttctgttacacaaaattaaaatctaaaaacaataatctcagtacctattt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187508 126 -  13858734 atgaaaatacagcctatcattatttctgggatgcagctaaagctgtgcttaaagaaaaatctatagtcctataggtttctgttacacaaaattaaaatctaaaaacaataatctcagtacctattt
i gorGor5.CYUI01015003v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e otoGar3.GL873528           24825920 206 -  38779656 I
e colAng1.NW_012120598v1      5178728 436 -  13750039 I
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9233287   0 +  32716333 C

a score=1033415.000000
s hg38.chr21_GL383579v2_alt     47198 1204 +    201197  
s panTro5.chr21               8669605 1200 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22205119 1200 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8187634 1203 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5179164 1199 -  13750039  
i colAng1.NW_012120598v1    I 436 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595    0 +  21915920 C
e macNem1.NW_012015021v1      4879203    0 -  30496662 C
e macFas5.chr3              167255328    0 - 192294377 C
e rheMac8.chr3              160618350    0 - 185818997 C
e cebCap1.NW_016107322v1     13884652    0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195    0 -   9889416 C
e calJac3.chr21              26464933    0 +  50472720 C
e saiBol1.JH378168            8657484    0 +  13128814 C
e otoGar3.GL873528           24825920  206 -  38779656 I
e manLeu1.NW_012103476v1      3407156    0 +   7543664 C
e chlSab2.chr2               19904289    0 -  90373283 C
e nomLeu3.chr25               9233287    0 +  32716333 C

a score=255896.000000
s hg38.chr21_GL383579v2_alt     48402 248 +    201197 ctaaaaactatgtttgagtagtattttataaattttttacatgtagaatt--------tcatcagcacattcatgatacaaagttgttccataactacagagaaatttc-----------------------------------ctcatgttgcaccttaatagtcatatgcttacctcaaacctaacctttgacaactactgaactgttcatgactatcattttg----ttagagaaaattaat-aaatagtatcacatataatctagcctttggcaatgggctttttt--ctcagc
s panTro5.chr21               8670805 248 +  33445071 ctaaaaactatttttgagtagtattttataaattttttacatgtagaatt--------tcatcagcacattcatgatacaaagttgttccacaactacagagaaatttc-----------------------------------ctcatgttgtaccttaatagtcatatgcttacctcaaatctaacctttgacaactactgaactgttcatgactatcattttg----ttacagaaaattaat-aaatagtatcacatataatctagcctttggcaatgggctttttt--ctcagc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22206319 248 +  46275980 ctaaaaactatttttgagtagtattttataaattttttacatgtagaatt--------tcatcagcacattcatgatacaaagttgttccacaactacagagaaatttc-----------------------------------ctcatgttgtaccttaatagtcatatgcttacctcaaatctaacctttgacaactactgaactgttcatgactatcattttg----ttagagaaaattaat-aaatagtatcacatataatctagcctttggcaatgggctttttt--ctcagc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8188837 248 -  13858734 cTAAAAACTATTTTTGAGTAGTATTTTATAAATTTTTTACATGTAGAATT--------Tcatcagcacattcatgatacaaagttgttccataactacagagaaatttc-----------------------------------ctcatgttgcaccttaatagtcatatgcttacctcaaacctaacctttgacaactactgaactgttcatgactatcattttg----ttagagaaaattaat-aaatagtatcacatataatctagcctttggtaatgggctttttt--ctcagc
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5180363 283 -  13750039 CTAAAAACTATTTTTGAGTAGTATTTTATAAAAATTTTACATGTAGAATT--------TCATCAGCACATTCATGATACAAAGTTGTCCCATAACTACTACAAAATACCCCTGGAATGCAGGGAGCAGAGGCTTGAAGATACATctcgtgttgcaccttaatagtcatatgcttacctcaaacctaatctttcacaactactgaactgttcatgactatcattttg----ttagagaacattaat-aaatagtatcacatataatctagcctttggcaatgggctttttt--ctcagc
i colAng1.NW_012120598v1    C 0 I 324
s otoGar3.GL873528           24826126 253 -  38779656 ctaaaaattagtttag-------tttcataa--tttttacatgtgtgattctatgtaatgatccacataatcatgatacaaaatagtttcatgatcataaagaaatg-c-----------------------------------cttttattgtacctaaatagtcatatgctaatctccaacctaatccttggcaactactgaacggttcttgggtagaatttggttacttacagcacactattcaaaccgtgctatatattatctaaacttttgaaattggcttttcttgctcaac
i otoGar3.GL873528          I 206 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9233287   0 +  32716333 C

a score=20424.000000
s hg38.chr21_GL383579v2_alt     48650 34 +    201197 ataatgtccgtaagCTATTCG-------TGTTATTTACATt
s panTro5.chr21               8671053 34 +  33445071 ataatgtccataagctattcg-------tgttatttacatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22206567 34 +  46275980 ataatgtccataagctattcg-------tgttatttacatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8189085 34 -  13858734 ataatGTCTGTAAGCTATTTG-------TATTATTTACATC
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24826379 39 -  38779656 ataatgcccttaag--atttgtccaagttgttaagtatatc
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595  0 +  21915920 C
e macNem1.NW_012015021v1      4879203  0 -  30496662 C
e macFas5.chr3              167255328  0 - 192294377 C
e rheMac8.chr3              160618350  0 - 185818997 C
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e colAng1.NW_012120598v1      5180646 324 -  13750039 I
e manLeu1.NW_012103476v1      3407156  0 +   7543664 C
e chlSab2.chr2               19904289  0 -  90373283 C
e nomLeu3.chr25               9233287  0 +  32716333 C

a score=1194563.000000
s hg38.chr21_GL383579v2_alt     48684 1207 +    201197  
s panTro5.chr21               8671087 1208 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22206601 1208 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8189119 1204 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5180970 1211 -  13750039  
i colAng1.NW_012120598v1    I 324 M 1305
s otoGar3.GL873528           24826418 1288 -  38779656  
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595    0 +  21915920 C
e macNem1.NW_012015021v1      4879203    0 -  30496662 C
e macFas5.chr3              167255328    0 - 192294377 C
e rheMac8.chr3              160618350    0 - 185818997 C
e cebCap1.NW_016107322v1     13884652    0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195    0 -   9889416 C
e calJac3.chr21              26464933    0 +  50472720 C
e saiBol1.JH378168            8657484    0 +  13128814 C
e manLeu1.NW_012103476v1      3407156    0 +   7543664 C
e chlSab2.chr2               19904289    0 -  90373283 C
e nomLeu3.chr25               9233287    0 +  32716333 C

a score=469911.000000
s hg38.chr21_GL383579v2_alt     49891 704 +    201197  
s panTro5.chr21               8672295 704 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22207809 704 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8190323 704 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24827706 667 -  38779656  
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e colAng1.NW_012120598v1      5182181 1305 -  13750039 M
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C
e nomLeu3.chr25               9233287   0 +  32716333 C

a score=200039.000000
s hg38.chr21_GL383579v2_alt     50595 192 +    201197 tagttcattaacagcaagttctccctcaaaaaagcattagaacatgaacacaattcgaccaagtttattgacattg-aacaaggtttaactttccttcagtttcttataccttgttcctcacttccatctaagacttaatcagaatggcctttagttttcaaatttctaccaacattgtgttcatgatcac---tt
s panTro5.chr21               8672999 192 +  33445071 tagttcattaacagcaagttctccctcaaaaaagcattagaacatgaacacaattcgaccaagtttattgacattg-aacaaggtttaactttccttcagtttcttataccttgttcctctcttccatctaagacttaatcagaatggcctttagttttcatatttctaccaacattgtgttcatgatcac---tt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22208513 192 +  46275980 tagttcattaacagcaagttctccctcaaaaaagcattagaacatgaacacaattcgaccaagtttattgacattg-aacaaggtttaactttccttcagtttcttataccttgttcctctcttccatctaagacttaatcagaatggcctttagttttcatatttctaccaacattgtgttcatgatcac---tt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191027 189 -  13858734 tagttcattaacagcaagttctccctcaaaaaagcattagaacatgaacacaatttggccaagtttattgacattgtaacaaggtttaactttccttcagtttcttataccttgttcctcacttccatctaag----aatcagaatggcctttagttttcatatttctaccaacattgtgttcatgatcac---tt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233287 196 +  32716333 tagttcattaatagcaagttctccctcaaaaaagcattagaacatgaacacaattcgaccaagtttattgacattgtaacaaggttgaactttccttcagtttcttataccttgttcctcacttccatctaagacttaatcagaatggcctttagttttcatatttctaccaacattctgttcatgatcacttaTT
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24828373 184 -  38779656 tccttcatccttcacaagttc-ccctccacagaacattagaccatccgtgaagttc-------tttacc-actttgtaacatggataacttttcttccagttcctaatgctttgttcttcattttcgtctaagacttcaccaaaacaacctttagtgtctacatttccatcaacattctattcataagcac---tt
i otoGar3.GL873528          C 0 I 41
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e colAng1.NW_012120598v1      5182181 1305 -  13750039 M
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=173841.000000
s hg38.chr21_GL383579v2_alt     50787 192 +    201197 aTTTCAttttattttttgagacagagtcttactctgttgcccaggctggagtgccgtggcgcaatcttggctcactgcaaactccacctcctaggttcacgtcattctcttgcctcagcctcctgagtagctgggactgcaggcgcccaccatcttgcccggctaattttttgtatttttagtagagacggg
s panTro5.chr21               8673191 192 +  33445071 aTTTCAttttattttttgagacagagtcttactctgttgcccaggctggagcgcagcggtgcaatcttggctcactgcaaactccacctcctaggttcacgtcattctcttgcctcagcctcctgagtagctgggactgcaggcgcccaccatcttgcctggctaattttttgtatttttagtagagacggg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22208705 192 +  46275980 aTTTCAttttattttttgagacagagtcttactctgttgcccaggctggagcgcagcggtgcaatcttggctcactgcaaactccacctcctaggttcacgtcattctcttgcctcagcctcctgagtagctgggactgcaggcgcccaccatcttgcccggctaattttttgtatttttagtagagacagg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191216 192 -  13858734 aTTTCATTTAAttttttgagacagagtcttactctgttgcccaggctggagcgcagcggcgcaatcttggctcactgcaaactccacctcctaggttcacgtcattctcttgcctcagcctcctgagtagctgggactgcaggcgcccaccatcttgcccggctaattttttgtattttcagtagagacggg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233483 192 +  32716333 Attttattttatttttcgagacagagtcttactctgtcgcccaggctggagcgcagtggcgcaatctcggctcactgcaaactccacctcccaggttcacgccattctcttgcctcagcctcctgagtagctgggactacaggtgcccaccatcttgcctggctaattttttgtatttttagtagagacggg
i nomLeu3.chr25             C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402595   0 +  21915920 C
e macNem1.NW_012015021v1      4879203   0 -  30496662 C
e macFas5.chr3              167255328   0 - 192294377 C
e rheMac8.chr3              160618350   0 - 185818997 C
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e otoGar3.GL873528           24828557  41 -  38779656 I
e colAng1.NW_012120598v1      5182181 1305 -  13750039 M
e manLeu1.NW_012103476v1      3407156   0 +   7543664 C
e chlSab2.chr2               19904289   0 -  90373283 C

a score=12690.000000
s hg38.chr21_GL383579v2_alt     50979 3 +    201197 gtt
s panTro5.chr21               8673383 3 +  33445071 gtt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22208897 3 +  46275980 gtt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191408 3 -  13858734 gtt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233675 3 +  32716333 gtt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618350 3 - 185818997 gtt
i rheMac8.chr3              C 0 C 0
s macNem1.NW_012015021v1      4879203 3 -  30496662 gtt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13402595 3 +  21915920 gtt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904289 3 -  90373283 gtt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3407156 3 +   7543664 gtt
i manLeu1.NW_012103476v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e macFas5.chr3              167255328 0 - 192294377 C
e cebCap1.NW_016107322v1     13884652 0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195 0 -   9889416 C
e calJac3.chr21              26464933 0 +  50472720 C
e saiBol1.JH378168            8657484 0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e colAng1.NW_012120598v1      5182181 1305 -  13750039 M

a score=16638.000000
s hg38.chr21_GL383579v2_alt     50982 5 +    201197 tcacc
s panTro5.chr21               8673386 5 +  33445071 tcacc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22208900 5 +  46275980 tcacc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191411 5 -  13858734 tcacc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233678 5 +  32716333 tcact
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618353 5 - 185818997 tccct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167255328 5 - 192294377 tccct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4879206 5 -  30496662 tccct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13402598 5 +  21915920 tccct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904292 5 -  90373283 tccct
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3407159 5 +   7543664 tccct
i manLeu1.NW_012103476v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cebCap1.NW_016107322v1     13884652 0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195 0 -   9889416 C
e calJac3.chr21              26464933 0 +  50472720 C
e saiBol1.JH378168            8657484 0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e colAng1.NW_012120598v1      5182181 1305 -  13750039 M

a score=709947.000000
s hg38.chr21_GL383579v2_alt     50987 124 +    201197 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccgcctcggcctcccaaagtgctgggattacagatgtgagccaccgcggctggccCCATGATCACTTAGATATCACT---AAGA
s panTro5.chr21               8673391 127 +  33445071 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccgcctcggcctcccaaagtgctgggattacagatgtgagccaccgcagctggccCCATGATCACTTAGATATCACTAAGAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22208905 127 +  46275980 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccgcctcggcctcccaaagtgctgggattacagatgtgagccaccgcagctggccCCATGATCACTTAGATATCACTAAGAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191416 127 -  13858734 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccgcctcggcctcccaaagtgctgggattacagatgtgagccaccgcggctggccCCATGATCACTTAGATATCACTAAGAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233683 127 +  32716333 gtgttagccaggatggtctggatctcctgacctcgtgatccgcccgcctcggcctcccaaagtgctgggattacaggtgtgaaccactgcgcctgaccCCATGATCACATAGATATCACTAAGAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618358 124 - 185818997 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccaactcggcctcccaaagtgctgggattacaggtgtgagccaccgcgcctggccCCATGATCACTTAGATATCACTAAGA---
i rheMac8.chr3              C 0 I 52
s macFas5.chr3              167255333 124 - 192294377 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccaactcggcctcccaaagtgctgggattacaggtgtgagccaccgcgcctggccCCATGATCACTTAGATATCACTAAGA---
i macFas5.chr3              C 0 I 3
s macNem1.NW_012015021v1      4879211 124 -  30496662 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccaactcggcctcccaaagtgctgggattacaggtgtgagccaccgcgcctggccCCATGATCACTTAGATATCACTAAGA---
i macNem1.NW_012015021v1    C 0 I 51
s cerAty1.NW_012002954v1     13402603 124 +  21915920 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccaactcggcttcccaaagtgctgggattacaggtgtgagccaccgcacctggccCCATGATCACTTAGATATCACTAAGA---
i cerAty1.NW_012002954v1    C 0 I 52
s chlSab2.chr2               19904297 124 -  90373283 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccaactcggcctcccaaagtgctgggattacaggtgtgagccaccgcgcctggccCCATGATCACTTAGATATCACTAAGA---
i chlSab2.chr2              C 0 I 53
s manLeu1.NW_012103476v1      3407164 124 +   7543664 gtgttagccaggatggtctggatctcctgacctcgtgatctgcccaacttggcttcccaaagtgctgggattacaggtgtgagccaccgcgcctggccCCATGATCACTTAGATATCACTAAGA---
i manLeu1.NW_012103476v1    C 0 I 56
s colAng1.NW_012120598v1      5183515 124 -  13750039 gtgtcagccaggatggtctggatctcctgaccttgtgatccacccgactcagcctcccaaagtgatgggattgcaggtgtgagccactgcgcctggccCCATGATCACTTAGATATTATTAAGA---
i colAng1.NW_012120598v1    M 1305 I 22
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e otoGar3.GL873528           24828557  41 -  38779656 I

a score=17935.000000
s hg38.chr21_GL383579v2_alt     51111 18 +    201197 CTAAGCCA-----CTTTTAAAAA
s panTro5.chr21               8673518 18 +  33445071 CTAAGCCA-----TTTTTAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209032 18 +  46275980 CTAAGCCA-----TTTTTAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191543 18 -  13858734 CTAAGCCA-----TTTTTAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233810 18 +  32716333 CTAAGCCA-----TTTTTAAAAA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167255460 20 - 192294377 CTAAGCCATTTTTTTTTTAA---
i macFas5.chr3              I 3 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402727 52 +  21915920 I
e macNem1.NW_012015021v1      4879335 51 -  30496662 I
e rheMac8.chr3              160618482 52 - 185818997 I
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e colAng1.NW_012120598v1      5183639 22 -  13750039 I
e manLeu1.NW_012103476v1      3407288 56 +   7543664 I
e chlSab2.chr2               19904421 53 -  90373283 I

a score=48375.000000
s hg38.chr21_GL383579v2_alt     51129 29 +    201197 ATTAGGACAGACATCTTTATTGAAATGTG
s panTro5.chr21               8673536 29 +  33445071 TTTAGGACAGAAATCTTTATTGAAATGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209050 29 +  46275980 TTTAGGACAGAAATCTTTATTGAAATGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191561 29 -  13858734 ATTAGGACAGAAATCTTCATTGAAATGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233828 28 +  32716333 -TTAGGACGGAAATCTTTATTGAAATGTG
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167255480 29 - 192294377 ATTAGGACAGAAATATTTAATGAAATGTG
i macFas5.chr3              C 0 C 0
s colAng1.NW_012120598v1      5183661 29 -  13750039 ATTAGGACAGAAATCTTTAATGAAATGTG
i colAng1.NW_012120598v1    I 22 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402727 52 +  21915920 I
e macNem1.NW_012015021v1      4879335 51 -  30496662 I
e rheMac8.chr3              160618482 52 - 185818997 I
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e manLeu1.NW_012103476v1      3407288 56 +   7543664 I
e chlSab2.chr2               19904421 53 -  90373283 I

a score=21753.000000
s hg38.chr21_GL383579v2_alt     51158 17 +    201197 TCTTTCGGTATATGTTA
s panTro5.chr21               8673565 17 +  33445071 TCTTTCAGTATATGTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209079 17 +  46275980 TCTTTCAGTATATGTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191590 17 -  13858734 TCTTTCGGTATATGTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233856 17 +  32716333 TCTTTCAGGATATGTTA
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5183690 17 -  13750039 TCTTTCAGTATATGTTA
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2284622 1978 +   3081153 I
e cerAty1.NW_012002954v1     13402727 52 +  21915920 I
e macNem1.NW_012015021v1      4879335 51 -  30496662 I
e macFas5.chr3              167255509  0 - 192294377 C
e rheMac8.chr3              160618482 52 - 185818997 I
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e manLeu1.NW_012103476v1      3407288 56 +   7543664 I
e chlSab2.chr2               19904421 53 -  90373283 I

a score=71210.000000
s hg38.chr21_GL383579v2_alt     51175 46 +    201197 GCATACTATATATACACATACATATATACTCTTTAACACAACTCAT
s panTro5.chr21               8673582 46 +  33445071 GCATACTATATATACACATACATATATACTCTTTAACACAACTCAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209096 46 +  46275980 GCATACTATATATACACATACATATATACTCTTTAACACAACTCAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191607 46 -  13858734 GCATACTATATATACACATACATATATGCTCTTTAACACAACTCAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233873 46 +  32716333 GCGTACTATATACACACATACGTATATACTCTTTAACACAACTCAT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5183707 46 -  13750039 GCGTACTGTATGCACACATACATATATACTCTTTAACACACCTCAT
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2286600 46 +   3081153 GTATACTATATATATATATACACACACACACGATTACAAGACCCAT
i dasNov3.JH578070          I 1978 I 10165
e cerAty1.NW_012002954v1     13402727 52 +  21915920 I
e macNem1.NW_012015021v1      4879335 51 -  30496662 I
e macFas5.chr3              167255509  0 - 192294377 C
e rheMac8.chr3              160618482 52 - 185818997 I
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e manLeu1.NW_012103476v1      3407288 56 +   7543664 I
e chlSab2.chr2               19904421 53 -  90373283 I

a score=498720.000000
s hg38.chr21_GL383579v2_alt     51221 374 +    201197 GTATTGCCACCATTCATTTAACCAATAAATTAAAACTAAAAT----------GATGGGAGGGAAGGGAAGGGGAACTAATGACAAACTTTTCATCTTATATCTGGTAAGAAATTGTGAATTTCTCAGAATTTCCCTGGAGAAAACCTGTGACCAGAGAATCTTTGAAATAAAATATATAAATCCCTGCCCCCTACCAAAAATATTTCCAAAAGATGGAGTTATTACAATAAGTGTGCTTCTCAGAACAGGAGCATTCATTCCACTCCCTACTCTTGCTTCTGCACCTCTGGCTTCAAGACAGTCTGTCCCTCAG-TAGGGCAGTGAGGTTTATATGGGCACGTAGGCTCAGTGCACCTTGGGCTCTGGGGGTTAAGGAGCAGGCT
s panTro5.chr21               8673628 374 +  33445071 GTATTGCCACCATTCATTAAACCAATAAATTAAAACTAAAAT----------GATGGGAGGGAAGGGAAGGGGAACTAATGACAAACTTTTCATCTTATATCTGGTAAGAAATTGTGAATTTCTCAGAATTTCCCTGGAGAAAACCTGTGACCAGAGAATCTTTGAAATAAAATATATAAATCCCTGTCCCCTACCAAAAATATTTCCAAAAGATGAAGTTATTACAATAAGTGTGCTTCTCAGAACAGGAGCATTCATTCCACTCCCTACTCTTGCTTCTGCACCTCTGGCTTCAAGACAGTCTGTCCCTCAG-TAGGGCAGTGAGGTTCATATGGGCACGTAGGCTCAGTGCACTTTGGGCTCTGGGGGTTAAGGAGCAGGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209142 374 +  46275980 GTATTGCCACCATTCATTAAACCAATAAATTAAAACTAAAAT----------GATGGGAGGGAAGGGAAGGGGAACTAATGACAAACTTTTCATCTTATATCTGGTAAGAAATTGTGAATTTCTCAGAATTTCCCTGGAGAAAACCTGTGACCAGAGAATCTTTGAAATAAAATATATAAATCCCTGTCCCCTACCAAAAATATTTCCAAAAGATGGAGTTATTACAATAAGTGTGCTTCTCAGAACAGGAGCATTCATTCCACTCCCTACTCTTGCTTCTGCACCTCTGGCTTCAAGACAGTCTGTCCCTCAG-TAGGGCAGTGAGGTTCATATGGGCACGTAGGCTCAGTGCACTTTGGGCTCTGGGGGTTAAGGAGCAGGCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8191653 374 -  13858734 GTATTGCCACCATTCATTTAACCAATAAATTAAAACTAAAAT----------GATGGGAGGGAAGGGAAGGGGAACTAATGACAAACTTTTCGTCTTATATCTGGTAAGAAATTGTGAATTTCTCAGAATTTCCCTGGAGAAAACCTGTGACCAGAGAATCTTTGAAATAAAATATATAAATCCCTGTCCCCTACCAAAAATATTTCCAAAAGATGGAGTTATTACAATAAGTGTGCTTCTCAGAACAGGAGCATTCATTCCACTCCCTACTCTTGCTTCTGCACCTCTGGCTTCAAGACAGTCTGTCCCTCAG-TAGGGCAGTGAGGTTCATATGGGCACGTAGGCTCAGTGCACCCTGGGCTCTGGGGGTTAAGGAGCAGGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9233919 374 +  32716333 GGATTGCCACCATTCATTTAACCAATAAATTAAAACTAAAAT----------GATGGGAGGGAAGGGAAGGGGAACTAATGACAAACTTTTCATCTTGTATCTGGTAAGAAATTGTAAATTTCTCAGAATTTCCCTGGAGAAAAGCTGTGACCAGAGAATCTTTGAAATAAAATATATAAATCCCTGTCCCCTACCAAAAATATTTCCAAAAGATGCAGTTATTACAATAAGTGTGCTTCTCAGAACAGGAGCATTCATTCCACTCCCTGCTCTTGCTTCTGCACCTCTGGCTTCAAGACAGTCTGTCCCTCAG-TAGGGCAGTAAGGTTCATATGGGCAAGTAGGCTCAGTGTACCTTGGGCTCTGGGGGTCAAGGAGCAGGCT
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5183753 385 -  13750039 GGTTTGCCACCATTCATTTAACCAGTAAATTAAAACTAAAATTTTAGTTTTAGTTGGGAGGGAAGCGAAGGGGAACTAATTGCAAACTTTTCATCTTATATCTGGTAAGAAATTGTGAATTTCTCAGAATTTCCCTGGAGAAAACCTATGGCCAGAGAATCTTTGAAATAAAATATATAAATCCCTATCCCCTACCAAAAATAATTCCAAAAGATGCAGTTATTACAATAAGTGTGCTTCTCAGAACAGGAGCATTCATTCCACTCCCTATTCTTGCTTCTGCATCTCTGGCTTCAAGACAGTCTGTCCCTCAGCTAGGGCACTGAGGTTCATATGGGCAGGTAGGCTCAGTGCACCTTGGGCTCTGGGGGTCAAGGAGCAGGCT
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I
e cerAty1.NW_012002954v1     13402727  52 +  21915920 I
e macNem1.NW_012015021v1      4879335  51 -  30496662 I
e macFas5.chr3              167255509   0 - 192294377 C
e rheMac8.chr3              160618482  52 - 185818997 I
e cebCap1.NW_016107322v1     13884652   0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195   0 -   9889416 C
e calJac3.chr21              26464933   0 +  50472720 C
e saiBol1.JH378168            8657484   0 +  13128814 C
e otoGar3.GL873528           24828557  41 -  38779656 I
e manLeu1.NW_012103476v1      3407288  56 +   7543664 I
e chlSab2.chr2               19904421  53 -  90373283 I

a score=449819.000000
s hg38.chr21_GL383579v2_alt     51595 83 +    201197 ACAGTATGGGAGCCGAGTGAGCAACACTCCTCTGAGGTTATGTCTGGTACATCATCTGACTAAGTATGAGAGTTTTCCAGGTC
s panTro5.chr21               8674002 83 +  33445071 ACAGTATGGGAGCCGAGTGAGCAACACTCCTCTGAGGTTATGTCTGGTACATCATCTGACTAAGTATGAGAGTTTTCCAGGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209516 83 +  46275980 ACAGTATGGGAGCCGAGTGAGCAACACTCCTCTGAGGTTATGTCTGGTACATCATCTGACTAAGTATGAGAGTTTTCCAGGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192027 83 -  13858734 ACAGTATGGGAGCCGAGTGAGCAACACTCCTCTGAGGTTATGTCTGGTACATCATCTGACTAAGTATGAGAGTTTTCCAGGTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9234293 81 +  32716333 ACAGTATGGGAGCCGAGCAAGCAACACTCCTCTGAGGTTATGTCTGGTACATCATCTGACTGACCAT--GAGTTTTCCAGGTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618534 83 - 185818997 ACAGTATGGGAGCTGAGCGAGCCACGCTCCTCTGAGGTTATGTCTGGCACATCCTCTGACTGAGTATCAGAGTTTTCCAGGTC
i rheMac8.chr3              I 52 I 26
s macFas5.chr3              167255509 83 - 192294377 ACAGTATGGGAGCTGAGCGAGCCACGCTCCTCTGAGGTTATGTCTGGCACATCCTCTGACTGAGTATCAGAGTTTTCCAGGTC
i macFas5.chr3              C 0 I 26
s macNem1.NW_012015021v1      4879386 83 -  30496662 ACAGTATGGGAGCTGAGCGAGCCACGCTCCTCTGAGGTTATGTCTGGCACATCCTCTGACTGAGTATCAGAGTTTTCCAGGTC
i macNem1.NW_012015021v1    I 51 I 26
s cerAty1.NW_012002954v1     13402779 83 +  21915920 ACAGTATGGGAGCTGAGCGAGCCACGCTCCTCTGAGGTTATGTCTGGCACATCCTCTGACTGAGTATCAGAGTTTTCCAGGTC
i cerAty1.NW_012002954v1    I 52 I 26
s chlSab2.chr2               19904474 83 -  90373283 ACAGTATGGGAGCCGAGCTAGCCACGCTCCTCTGAGGTTATGTCTGGCACATCCTCTGACTGAGTATCAGAGTTTTCCAGGTC
i chlSab2.chr2              I 53 I 26
s manLeu1.NW_012103476v1      3407344 83 +   7543664 ACAGTATGGGAGCTGAGCGAGCCACGCTCCTCTGAGGTTATGTCTGGCACATCCTCTGACTGAGTATCAGGGTTTTCCAGGTC
i manLeu1.NW_012103476v1    I 56 I 28
s colAng1.NW_012120598v1      5184138 82 -  13750039 ACAGTATGGGAGCCGAGAGAGCCACGCTCCTCTGCGGTTACATCTGGCACATCCTATG-CTGAGTATGAGAGTTTTCCAGGTC
i colAng1.NW_012120598v1    C 0 I 26
e dasNov3.JH578070            2286646 10165 +   3081153 I
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I

a score=-4955.000000
s hg38.chr21_GL383579v2_alt     51678 4 +    201197 CCTG
s panTro5.chr21               8674085 4 +  33445071 CCTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209599 4 +  46275980 CCTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192110 4 -  13858734 CCTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9234374 4 +  32716333 CCTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618643 2 - 185818997 TC--
i rheMac8.chr3              I 26 C 0
s macFas5.chr3              167255618 2 - 192294377 TC--
i macFas5.chr3              I 26 C 0
s macNem1.NW_012015021v1      4879495 2 -  30496662 TC--
i macNem1.NW_012015021v1    I 26 C 0
s cerAty1.NW_012002954v1     13402888 2 +  21915920 TC--
i cerAty1.NW_012002954v1    I 26 C 0
s chlSab2.chr2               19904583 2 -  90373283 TC--
i chlSab2.chr2              I 26 C 0
s colAng1.NW_012120598v1      5184246 2 -  13750039 TC--
i colAng1.NW_012120598v1    I 26 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I
e cebCap1.NW_016107322v1     13884652 0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195 0 -   9889416 C
e calJac3.chr21              26464933 0 +  50472720 C
e saiBol1.JH378168            8657484 0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I
e manLeu1.NW_012103476v1      3407427 28 +   7543664 I

a score=153604.000000
s hg38.chr21_GL383579v2_alt     51682 27 +    201197 TGGATGCTCTCAGGCTGGGCCAGACTG
s panTro5.chr21               8674089 27 +  33445071 TGGATGCTCTCAGGCTGGGCCAGACTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209603 27 +  46275980 TGGATGCTCTCAGGCTGGGCCAGACTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192114 26 -  13858734 TGGATGCTCTCAGGCTGGGCCAGACT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9234378 27 +  32716333 TGGATGCTCTCAGACTGGGCCAGGCTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618645 27 - 185818997 TGGATGCTCTTAGGCTGGGCCAGGCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167255620 27 - 192294377 TGGATGCTCTTAGGCTGGGCCAGGCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4879497 27 -  30496662 TGGATGCTCTTAGGCTGGGCCAGGCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13402890 27 +  21915920 TGGATACTCTTAGGCTGGGCCAGGCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904585 27 -  90373283 TGGATGCTCTTAGGCTGGGCCAGGCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3407455 27 +   7543664 TGGATGCTCTTAGGCTGGGCCAGGCTG
i manLeu1.NW_012103476v1    I 28 C 0
s colAng1.NW_012120598v1      5184248 27 -  13750039 TGGATGCTCTCAGGCTGGGCCAAGCTG
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I
e cebCap1.NW_016107322v1     13884652  0 -  14377064 C
e canFam3.chr31              18000329 5079 +  39895921 I
e aotNan1.NW_018487195v1      9122195  0 -   9889416 C
e calJac3.chr21              26464933  0 +  50472720 C
e saiBol1.JH378168            8657484  0 +  13128814 C
e otoGar3.GL873528           24828557 41 -  38779656 I

a score=1020778.000000
s hg38.chr21_GL383579v2_alt     51709 108 +    201197 ATGTCCCAGAGTCTGCTGGCCAGGCAGTCTTTCTGTTCACATCTTTGGTGTCTG-TTGAGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAG-Tt
s panTro5.chr21               8674116 108 +  33445071 ATGTCCCAGAGTCTGCTGGCCAGGCAGTCTTTCTGTTCACATCTTTGGTTTCTG-TTGAGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAG-Tt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209630 108 +  46275980 ATGTCCCAGAGTCTGCTGGCCAGGCAGTCTTTCTGTTCACATCTTTGGTTTCTG-TTGAGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAG-Tt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192140 108 -  13858734 ATGTCCCAGAGTCTGCTGGCCAGGCAGTCTTTCTGTTCACATCTTTGGTGTCTG-TTGAGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAG-Tt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9234405 109 +  32716333 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTTGGTGTCTG-TTGGGGGATCCTCCTCACCACTTCCATCACCACTACCTTCTTCTTTGTCCAGttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618672 109 - 185818997 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTGAATCCCTG-TGGGGGGATTCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAGTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167255647 109 - 192294377 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTGAATCCCTG-TGGGGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAGTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4879524 109 -  30496662 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTGAATCCCTG-TGGGGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAGTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13402917 110 +  21915920 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTCGGTGTCTGTTGGTGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAGTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904612 109 -  90373283 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTTGGTGTCTG-TGGGGGGATCCTCTTCACCACCTCCATCACCACTACCTTCTTCTTTGTCCAGTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3407482 109 +   7543664 ATGTCCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTCGGTGTCTG-TGGGGGGATCCTCTTCACCACCTCCATCACCACTACCTTATTCTTTGTCCAGTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5184275 109 -  13750039 ATGTTCCAGAGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTCGGTGTCTG-TGGGGGGATCCTGTTCACCATCTCCATCACCACTACCTTCTTCTTCCTCCAGTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26464933 108 +  50472720 ATGTCCCAGGGTTTGCTGGTCAGGCAGTCTTTCTGTTCACAGCTTTGGCATCTG-CGGAG-GATCCTTTTCACCACCCCCACCACTGCTACCTTCCTCTTTGTTCAAttt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8657484 108 +  13128814 ATGTCCCAGGGTTTGCTGGCCAGGCAGTCTATCTATTCACAGCTTTGGTGTCTG-TGGGG-GATCCTTTTCACCACCTCCATCACCACTACCTTCCTCTTTGTCCAAttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13884652 108 -  14377064 ATGTCCCAGGGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTTGGCATCTG-TGGGG-TATCCTTTTAACCACCTCCACCACCACTACCTTCCTCTTTGTCCGAttt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9122195 107 -   9889416 ATGTCCCAGTGTTTGCTGGCCAGGCAGTCTTTCTGTTCACAGCTTTGATGTCTG-CGGGG--ATCCTTTTcaccacctccaccaccactaccTTGCTCCTTGTCCGATTT
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I
e canFam3.chr31              18000329 5079 +  39895921 I
e otoGar3.GL873528           24828557  41 -  38779656 I

a score=1069537.000000
s hg38.chr21_GL383579v2_alt     51817 113 +    201197 tcttctgagtc----ttcaccaaaatcactctt-----agatgttccattcacagcaatACATTACAGGCCAAACTCATATCAGGTCAGCATTCACATCAAAATACACCTTATTTCTTGATA
s panTro5.chr21               8674224 113 +  33445071 tcttctgagtc----ttcaccaaaatcactctt-----agatgttccattcacagcaatACATTACAGGCCAAACTCGTATCAGGTCAGCATTCACATCAAAATACACCTTATTTCTTGATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209738 113 +  46275980 tcttctgagtc----ttcaccaaaatcactctt-----agatgttccattcacagcaatACATTACAGGCCAAACTCATATCAGGTCAGCATTCACATCAAAATACACCTTATTTCTTGATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192248 113 -  13858734 tcttctgagtc----ttcaccaaaatcactctt-----agatgttccattcacagcaatACATTACAGGCCAAACTCATATCAGGTCAGCATTCACATCAAAATACACCTTATTTCTTGATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9234514 113 +  32716333 tcttctgagtc----ttcaccaaaatcactctt-----agatgttccattcacagcaatACATTACAGGACAAACTCATATCAGGTCAGCATTCACATCAAAATACACCTTATTTCTTGATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618781 112 - 185818997 TCTTCTGAGTC----TTCCCC-AAATCACTCTT-----AGATATTCCAGTCACAGCAATACAGTACGGGCCAAACTCACATCAGATCGGTATTCACGTCAAAATACACCTCATTTCTCGATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167255756 112 - 192294377 TCTTCTGAGTC----TTCCCC-AAATCACTCTT-----AGATATTCCAGTCACAGCAATACATTACGGGCCAAACTCACATCAGATCGGTATTCACGTCAAAATACACCTCATTTCTCGATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4879633 112 -  30496662 TCTTCTGAGTC----TTCCCC-AAATCACTCTT-----AGATATTCCAGTCACAGCAATACATTACGGGCCAAACTCACATCAGATCGGTATTCACGTCAAAATACACCTCATTTCTCGATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13403027 112 +  21915920 TCATGTGAGTC----TTCACC-AAATCACTCTT-----AGATGTTCCAGTCACAGCAATACATGATGGGCCAAACTCACATCAGATCAGTATTCCCATCAAAATACACCTCATTTCTTGATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904721 112 -  90373283 TCATGTGAGTC----TTCACC-AAATCACTCTT-----AGATGTTCCAGTCACAGCAATACATTATGGGCCAAACTCACATCAGATCAGTATTCCCATCAAAATACACCTCATTTCTTGATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3407591 112 +   7543664 TCATGCGAGTC----TTCACC-AAATCACTCTT-----AGATGTTCCAGTCACAGCAATACATTATGGGCCAAACTCACATCAGATCAGTATTCCCATCAAAATACACCTCATTTCTTGATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5184384 112 -  13750039 TCTTCTGAGTC----TTCACC-AAATCACTCTT-----AGATCTTCCAGTCACAGCAATACATTACGGGCCAAACTCACATCAGATCAGTATTCCCATCAAAATACACCTCATTTCTTGATA
i colAng1.NW_012120598v1    C 0 I 311
s calJac3.chr21              26465041 113 +  50472720 ttttctgagtc----ttcaccaaaatcactctt-----aagagttccattcacagcaatACATCACAAGTTAAACTCCCATCAGGTCAACGTTCACATCAAAATATACCTCATTTCTTGATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8657592 113 +  13128814 ttttctgagtc----ttcaccaaaatcactctt-----aaatgttccattcatagcaatACATTACAGGTTAAACTCCCATCAGGTCAACGTTCACATCAAAATACACCTCATTTCTTGATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13884760 113 -  14377064 ttttctgagtc----ttcaccaaaatcactctt-----aattgttccattcacagcaatACATTACAGGTTAAACTACCATCAGGTCAACATTCACATCAAAATACAGCCCATTTCTTGATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9122302 112 -   9889416 TTTTCTGAGTC----TTCA-CAAAATCACTCTT-----AAATGTTCAATTCACAGCAATACATTACAGGTTAAACTCCCATCAGGTCAACATTCACATCAAAATACACCTCATTTCTTGATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24828598 105 -  38779656 ttttctgagcctttgttcaccaaaattaccactcacagaaatgttccaatcaccaaaatgcat----------gctttt-----gtcagtgttcacttccaagttcatcca--ttctTGATA
i otoGar3.GL873528          I 41 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I
e canFam3.chr31              18000329 5079 +  39895921 I

a score=4241580.000000
s hg38.chr21_GL383579v2_alt     51930 448 +    201197 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------ataacagactgggtaagttatcaataatagaaa-ttatttctcccatttctgg-------aaagttcaagatcaatac-------caggcatctggtgtctgatgagggccttcttgatgcatccttacatgtcagaaggcagaagggctacaagaaggccaaact--c---ttcctcaagcc-tttttgagaatactaaatctcattcatgaagggagagccttcatgacttaaccttatctcccaaaaggccccagggctcaatattgccaccaggagaattaagttcaatattaacttcagaagggatga-catcattcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTATGGGGTAAAAACACCAAACCCAGAAACAACT
s panTro5.chr21               8674337 446 +  33445071 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------ataacagactgggtacgttatcaataatagaaa-ttatttctcccatttctgg-------aaagttcaagatcaatac-------caggcatctggtgtctgaggagggccttcttgatgcatccttacatgtcagaaggcagaagggctagaagaaggccaaact--c---ttcctcaagcc-tttttgagaatactaaatctcattcatgaagggagagccttcatgacttaacc--atctcccaaaaggcccgagggctcaatattgccaaaaggagaattaagttcaatattaacttcagaagggacga-catcattcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTATGGGGTAAAAACACCAAACCCAGAAACAACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22209851 446 +  46275980 CCAGTTTCtatcttaattgatctgtgc--tgctctaccaaaat-----------------ataacagactgggtacgttatcaataatagaaa-ttatttctcccatttctgg-------aaagttcaagatcaatac-------caggcatctggtgtctgaggagggccttcttgatgcatccttacatgtcagaaggcagaagggctagaagaaggccaaact--c---ttcctcaagcc-tttttgagaatactaaatctcattcatgaagggagagccttcatgacttaacc--atctcccaaaaggcccgagggctcaatattgccaaaaggagaattaagttcaatattaacttcagaagggacga-catcattcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTATGGGGTAAAAACACCAAACCCAGAAACAACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192361 447 -  13858734 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------ataacagactgggtaagttatcaataatagaaa-ttatttctcccatttctgga------aaagttcaagatcaatac-------caggcatctggtgtctgatgagggccttcttgatgcatccttacatgtcagaaggcagaagggctagaagaaggccaaact--c---ttcctcaagcc-tttttgagaatactaaatctcattcatgaagggagagccttcatgacttaacc--atctcccaaaaggccccagggctcaatattgccaccaggacaattaagttcaatattaacttcagaagggacga-catcattcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGGTAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTATGGGGTAAAAACACCAAACCCAGAAACAACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9234627 446 +  32716333 CCAGTTTCtatcttaattgatttgtgc--tgccctaccaaaat-----------------ataacagactgggtaagttatcaataacagaaa-ttatttctcccatttctgg-------aaagttcaagatcagtac-------caggcattaggtgtctgatgagggccttcttgatgcatccgtacatgccagaaggcagaaaggctagaagaaggccaaact--c---ttcctcaagcc-tttttgagaatactaaatctcattcatgaagggagagccttcatgacttaacc--atctcccaaaaggccccagagctcaatactgccaccaggataattaagttcaatattaacttcagaagcgacaa-catcattcacaccagagcTTTCATTATTGTAGGGCAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTATGGGGTAAAAACACCAAACCCAGAAACAACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160618893 446 - 185818997 CCAGTTTTtgccttaattgatttgtgc--tgctctaccaaaat-----------------ataagagactgggtaagttatcaataatagaaa-ttgtttctcccatttttgg-------aaagttcaagatcaatac-------caggcatttggtgtctgatgagggacttactgatgcatccttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttgaggatactaaatctcatccatgaaggcagagccttcaagacttaacc--atctcccaaaaggccccaacactcagtacttctaccatgagaattaagttcagtattaacttaagaagggacaa-catcgttcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGGTAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167255868 446 - 192294377 CCAGTTTTTACcttaattgatttgtgc--tgctctaccaaaat-----------------ataagagactgggtaagttatcaataatagaaa-ttgtttctcccatttttgg-------aaagttcaagatcaatac-------caggcatttggtgtctgatgagggacttactgatgcatccttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttgaggatactaaatctcatccatgaaggcagagccttcacgacttaacc--atctcccaaaaggccccaacactcaatacttctaccatgagaattaagttcagtattaacttaagaagggacaa-catcattcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGGTAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4879745 446 -  30496662 CCAGTTTTTACcttaattgatttgtgc--tgctctaccaaaat-----------------ataagagactgggtaagttatcaataatagaaa-ttgtttctcccatttttgg-------aaagttgaagatcaatac-------caggcatttggtgtctgatgagggacttactgatgcatccttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttgaggatactaaatctcatccatgaaggcagagccttcacgacttaacc--atctcccaaaaggccccaacactcaatacttctaccatgagaattaagttcagtattaacttaagaagggacaa-catcgttcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGGTAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13403139 446 +  21915920 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------ataagagactgggtaagttatcaataatagaaa-ttatttctcccatttttgg-------aaagttcaagatcaatac-------caggcatttggtgtctgatgagggacttactgatgcatccttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttgaggatactaaatctcactcacgaaggcagagccttcatgacttaacc--atctccccaaaggccccaacactcattacttctaccgtgagaattaagttcagtattaacttaagaagggacaa-catcgttcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGGTAGGGCTAAGACCACAGGCTCAGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19904833 446 -  90373283 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------ataagagactgggtaagttatcaataatagaaa-ttatttctcccatttttgg-------aaagttcaagatcaacac-------caggcatttggtgtctgatgagagacttcttgatgcacctttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttgaggttactaaatctcatccatgaaggcagagccttcaagacttaacc--atctcccaaaaggccccaacactcaatacttctaccatgagaattaagttcagtattaacttaagaagggacaa-catcgttcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3407703 446 +   7543664 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------gtaacagactgggtaagttatcaataatagaaa-ttatttctcccatttttgg-------aaagttcaagataaatac-------caggcatttggtgtctgatgagggacttactgatgcatccttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttgaggatactaaatctcactcacgaaggcagagccttcatgacttaacc--atctccccaaaggccccaacactcaatacttctaccatgagaattaagttcagtattaacttaagaagggacaa-cgtcgttcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGGTAGGGCTATGACCACAGTCTCTGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5184807 446 -  13750039 CCAGTTTCtatcttaattgatttgtgc--tgctctaccaaaat-----------------ataacagactggacaagttatcaataatagaaa-ttttttctcccatttttgg-------aaagttcaagatcaatac-------caggcatttggtgtctgatgagggacttactgatgcatccttacatgccagaaggcagaagggctaaaagaaggccacact--c---ttcctcaagcc-tttttggggatactaaatctcattcaggaaggcagagccttcatgacttaacc--atctcccaaaaggccccaacactcattacttctaccatgagaattaagttcaatattaacttcagaagggacaa-cgttattcacaccatagcTCTCATTATTGTAGGGCAGAGTTGGAAGACAGGGCTATGACCATAGGCTCTGCCAGAGCAGGGGTCTGGGGTAAAAACACCAAACCCAGAAACAACT
i colAng1.NW_012120598v1    I 311 C 0
s calJac3.chr21              26465154 443 +  50472720 CCAGTTTAtatcttaatctatttgtgc--tactctatcaaaattatcaataataattttattggtaaaatttgcaagttatcaataatata-t-ttttttctcccatttctgg-------aaagttcaagattgatac-------caggcatttgatgtc-gatgagggccttcttgatgcatccttacatgcc-------------------agaaagccaaactgac---ttcctcaagcc--ttttaagaatacaaaatctcattcctgaaggcagagccttcatgacttaacc--atctttcagaaggccccaactctcagtactgccatcatgagaattaagttcaatattaacttcagaaaagatga-cattattcacaccatagcTCTCATGACTGGAGCACAGTGTTGGAATATAGGGCTATGACCACAGGCTCTGCCAGAGTAGAGGTCTGGGGTAAAAACAGCAAACCCAGAGACAACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8657705 444 +  13128814 CCAGTTTCtatcttcgtctatttgtgc--tactctaccaaaattatcaataataattttattgataaaattggtaagttattaataataga-t-ttttttatcccatttttgg-------aaagttcaatattaatat-------caggcatttgatgtctgatgagggccttcttgatggatccttacatgcc-------------------agaaggccaaactgac---ttcctcaagcc--ttctaaggatacaaaatctcattcatgaaggcagagccttcatgacttaacc--gtctttcagaaggcctcaactttcaatactgccaccatgagaattaagttcaatattaacttcagaagagacag-cattattcacaccatagcTCTCACGACTGGAGCACAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGAGGTCTGGGGTAAAAACACCAAACTCAGAGACAACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13884873 443 -  14377064 CTACTTTCTATCTTAATCTATTTGTGC--TCCTCTACCAAAATTATCAATAATAATTTTAGTGATAAAATTggtaagttatcaataataga---ttttttctctcatttctgg-------aaggttcaagattaatac-------caggcattcgaagtctgatgggggccttcttgatgcatccttacatgcc-------------------agaagtccaaactgac---ttcctcaagcc--ttgtaaagatacaaaatctcattcatgaaggcagagccttcataccttaacc--atctttcagaaggtcccaactttcaatactgccaccatgagaattaagttcaatattaacttcagaagagatga-cattattcacaccatCTCTTTCATGACTGGAGCACAGAGTTGAAAGACAGGGCTATGACCACAGGCTCTGCGAGAGCAGAGGCCTGGGGTAAAAACACCAAACCCAGAGACAACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9122414 444 -   9889416 CCAGTTTCtatcttaatctatttgtgc--tactctaccaaaattatcaataataattttattgataaaattggtaagttatcaataataga-t-ttttttctcccatttctgg-------aaagttcaagattaatac-------caggcatttgatgtctgatgagggccttcttgatgcatccttacatgcc-------------------agaaggccaaactgac---ttcctcaagcc--ttttaaggatacaaaatctcattcatgaaggcagaaccttcatgacttaacc--atctttcagaaggcctcgactttcaatactgccaccatgaaaatcaagttcaatattaacttcagaagagatga-cattattcgcaccatagcTTTCATGACTGGAGCACAGAGTTGGAAGATAGGGCTATGACCACAGGCTCTGCCAGAGCAGAGTTCTGGAGTAACAACACCAAACCCAGAGAAAACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24828703 446 -  38779656 TCAGTTTCtgtc-tgattcctttttactttgttataaaaaagt-----------------accacagatcggatgatttacaaataatataaatttatttctcccttttctagaggctagaaagtccaagatcaaagcacagggacaggcatgcaa-----ggtggagagcttctcccttcatctttatgtggcagaagaaaagggggctaaaagagggacacatt--cacttccctcataccgtttgtaagggaacctaatcccatttatgaagacaaagtcct-gtgacttaaca---------------ctccaactctcagtcccactgccctggggatgaaattctacattaatgt--gcagggaaaattatcattgatatggtagcaATCAGGATTGTGGAGAAGAGTTGGAAGACAGGGCTATGACCGTAGGCTCTGCAATGGTGGAGGTCTGCGGTGGAAAATCAAACCCCAAAGATAACT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I
e canFam3.chr31              18000329 5079 +  39895921 I

a score=4389329.000000
s hg38.chr21_GL383579v2_alt     52378 348 +    201197 TTCTCTGACAGGAAA-AA-AAAAATAGCAAAGCAATACTTACTGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAGAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGAGTTTAGA
s panTro5.chr21               8674783 348 +  33445071 TTCTCTGACAGGAAA-AA-AAAAATAGCAAAGCAATACTTACTGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAGAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGAGTTTAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22210297 348 +  46275980 TTCTCTGACAGGAAA-AA-AAAAATAGCAAAGCAATACTTACTGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAGAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGAGTTTAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8192808 348 -  13858734 TTCTCTGACAGGAAA-AA-AAAAATAGCAAAGCAATACTTACTGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAGAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGAGTTTAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235073 349 +  32716333 TTCTCTGACAGGAAA-AAGAAAAATAGCAAAGCAATACTTACTGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACACAGATGTGAGAAGGAATGCAAATCACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACGTTGCGTTTAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160619339 348 - 185818997 TTCTCTGACAGGAAA-AG-AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167256314 348 - 192294377 TTCTCTGACAGGAAA-AG-AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4880191 348 -  30496662 TTCTCTGACAGGAAA-AG-AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13403585 346 +  21915920 TTCTCTGACAGGAAA----AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTGCTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19905279 347 -  90373283 TTCTCTGACAGGAAA-A--AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATTACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3408149 348 +   7543664 TTCTCTGACAGGAAA-AG-AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCTTCTTAAAAAGAGAAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCACACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5185253 347 -  13750039 TTCTCTGACAGGAAA-A--AAAAATAGCAAAGCAATACTTAATGCTACATTTTTCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGCCTTCTTAAAAAGAGGAAATTAAAGCTCCTATGTCAATTCAAACAATACAAACTAACAGGCAGAAAAGAAACCCAGATGTGAGAAGGAATGCAAATCACCACACGAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGAATCTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTGTATTTAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26465597 344 +  50472720 TTCTCTGACTG-----AA-AAAAAAAGTGAAGTGATACTTACTGCTGCATTTTTCAAACATGCAAAAATAAAACATCGAGGGACAACTTACAAGTTTGCAGGAAATTAACATTTTTAAGAAAAGTTTCATCTCGTCATCTTAAAAAGAGAAAATTAAAGCTCCTATGTTAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGGAGGAATGCAAATCACCATACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGAACTGAGAGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTACATTTAGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8658149 349 +  13128814 TTCTCTGACTGGAAAAAA-AAAAAAAATGAAATGATACTTACTGCTGCATTTTGCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCATCTTAAAAAGAGAAAATTAAAGCTCCTATGTTAATTCAAACAATGCAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCATACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGAACTGAGGGAACATATTGGTAAAATATTAAAAGTACTTTGAAAAGTTTTAAGTGACATTTCATTTAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13885316 345 -  14377064 TTCTCTGAGTGG----AA-AAAAAAAGTGAAGTGATACTTACTGCTGCATTTTGCAAGCATGCAAAAATAAAACATCTAGGGACAACTTACAAGTTTGCAGGAAATTATCATTTTTAAGAAAAGTTTCATTTTGTCATCTTAAAAAGAGAAAATTAAAGCTCCTATGTTAATTCAAACAATGCAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCATACTAAAAAGCTGAGAAA-TTACTCAGCAGGATCCAAAAATAATTAGGAACTGAGGGAACATATTGGTAAAATATTAAAAGTACTTTGAAAAGTTTTAAGTGACATTTCATTTAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9122858 344 -   9889416 TTCTCTGATTGG----AA-AAAAAAAGGGAAGTGATGCTTACTGCTGCATTTTGCAAGCATGCACAAGTAAAACATCTAGGGACAACTTTCAAGTTTGCAGGAAATTATCATTTTTAAGGAAAGTTTCATTTTGTCATCTTAAAAAGAGAAAATTAAAGCTCCTATGTTAATTCAAACAATACAAACTAACAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCATACTAAAAAGCTGAG-AA-TTACTCAGCAGGATCCAAAAATAATTAGGAACTGAGTGAACATATTGGTAAAATATTAAAAGTACTTTGAAAACTTTTAAGTGACATTTCATTTAGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24829149 343 -  38779656 TTCTCTAACAATCAA-AG-CAAAGC-----ATTACTACTTACTGGTGCATTTTTCAAACATGCAAAAATGAGATATCTAGAGACAACTTACAAGTTTGCAGAAAATTTCCATTTTTAAGAAAAGTTTTATCTTGTCTTCTTAAGGAGAGAAAATTGAAAGTTCTATGTCATTCCAAATAGTGTAAAATAAAAGGCAGAAAAAGAACACAGATGTGAGAAGGAATGCAAATCACCATACTAC-AAGCTGAGAAGTTTACTCAGCAGGATCCAAAAATAATTAGGAACTGAGTGAACATATTGGTAAAATATTATAAGTACTTTGAAAACTTTTAAGTGACATGGCATTCAGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18005408 342 +  39895921 TTCTCTGGCAAAGAA-AA-A-------CAAGGCAATACTTACTGCTGCATTTTTAAAGCATGAAAATATAAGACATCTCAAGACAATTTAGAAGTTTGTAGGAAATTTTCATTTTTAAGAAAAATTTCATCTTGTCTTCTTAAGAAGAGAAAATTGAAGCTCCTATGTCAATCCAAACAATAAAAAATAAAAGGCAGAAAAAGAACCCAGATGTGAGAAGGAATGCAAATCACCCTACTAAGAAGCTGAGAAAATTACTCAGCAGGATCCAAAAATAATTAGGAACTGAGTGAGCATATTGGTAAAATATTAAAAGTACTTTGAAAACTCTTAAGTGACAATATATTTAGA
i canFam3.chr31             I 5079 C 0
e dasNov3.JH578070            2286646 10165 +   3081153 I

a score=1147945.000000
s hg38.chr21_GL383579v2_alt     52726 91 +    201197 AGGAAATTTCTT--CTTGGATAGTATGATGAGACTTTTT-TGAAAATAGATCACCAGTAGGGGCTGACAGCTGTTGCAACATTTATTTTTCTTT
s panTro5.chr21               8675131 91 +  33445071 AGGAAATTTCTT--CTTGGATAGTATAATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGCTGACAGCTGTTGCAACATTTATTTATCTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22210645 91 +  46275980 AGGAAATTTCTT--CTTGGATAGTATAATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGCTGACAGCTGTTGCAACATTTATTTATCTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193156 91 -  13858734 AGGAAATTTCTT--CTTGGATAGTATGATGAGACTTTTT-TGAAAATAGATCACCAGCAGGGGCTGACAGCTGTTGCAACATTTATTTTTCTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235422 91 +  32716333 AGGAAATTTCTT--CTTGGATAGTATGATGAGACTTTTT-TGAAAATAGATCACCAGTAGGGGTTGACAGCTGTTGCAACATTTATTTTTCTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160619687 91 - 185818997 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGTTGACAGCTACTGCAACATTTATTTTTCTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167256662 91 - 192294377 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGTTGACAGCTACTGCAACATTTATTTTTCTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4880539 91 -  30496662 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGTTGACAGCTACTGCAACATTTATTTTTCTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13403931 91 +  21915920 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGTTGACAGCTACTGCAACATTTATTTTTCTTT
i cerAty1.NW_012002954v1    C 0 I 49
s chlSab2.chr2               19905626 91 -  90373283 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGTTGACAGCTACCGCAACATTTATTTTTCTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3408497 91 +   7543664 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATCACCAGTAGGGGTTGACAGCTACTGCAACATTTATTTTTCTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5185600 91 -  13750039 AGGAAATTTCTT--CTTGGACAGTATGATGAGACTTTTT-TGGAAACAGATCACCAGTAGGGGTTGACGGCTACTGCAACATTTATTTTTCTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26465941 91 +  50472720 AGATAATTTCCT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATTACCAGTAGGGGTTGACAGCTGTTGCAACATCTATTTATTTAT
i calJac3.chr21             C 0 I 2
s saiBol1.JH378168            8658498 91 +  13128814 AGATAAATTCCT--CTTGGACACTATGATGAGACTTTTT-TGGAAACAGATTACCGGTAGGGGTTGACAGCTGTTGCAACATTTATTTATTTAT
i saiBol1.JH378168          C 0 I 2
s cebCap1.NW_016107322v1     13885661 91 -  14377064 AGATAAATTCCT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATTACCAGTAGGGGTTGACAGCTGTTGCAACatttatttatttat
i cebCap1.NW_016107322v1    C 0 I 2
s aotNan1.NW_018487195v1      9123202 91 -   9889416 AAATAATTTCCT--CTTGGACAGTATGATGAGACTTTTT-TGAAAACAGATTACCAGTAGGGTTTGACAGCTGTTACAACatttatttatttat
i aotNan1.NW_018487195v1    C 0 I 2
s otoGar3.GL873528           24829492 89 -  38779656 AGATAATTTTTTGCCTTGGACAGTATGAGGAG-CCTTTC-TGAAAATAGATTACCAGGAGGGGTTGACAGCTGCTGCAACATTTACTTTGC---
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18005750 92 +  39895921 AGATTTTTTCTT--CCTGGACAGTAAGATGAAGCTTTTTCTGAAAATAGATTACCAGTGGGGGATGACAGCTGTTGCaatatttatttttcttt
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2296811 90 +   3081153 AGGCATTTACAT--TTTGCACAATATAATAAGACTTTTC-TGATAATATATTACCAGTGGGGGTTAACCACTGTTCCAAAAT-TATTTTTCTTT
i dasNov3.JH578070          I 10165 C 0

a score=-13664.000000
s hg38.chr21_GL383579v2_alt     52817 18 +    201197 TCTTTTTTTAAAAAAATT
s panTro5.chr21               8675222 18 +  33445071 TCTTTTTTTAAAAAAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22210736 18 +  46275980 TCTTTTTTTAAAAAAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193247 17 -  13858734 TCTTTTTTT-AAAAAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235513 12 +  32716333 TCTT------AAAAAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160619778  8 - 185818997 ----------AAAAAAAA
i rheMac8.chr3              C 0 I 5
s macFas5.chr3              167256753  8 - 192294377 ----------AAAAAAAA
i macFas5.chr3              C 0 I 5
s macNem1.NW_012015021v1      4880630  8 -  30496662 ----------AAAAAAAA
i macNem1.NW_012015021v1    C 0 I 5
s chlSab2.chr2               19905717  8 -  90373283 ----------aaaaaaaa
i chlSab2.chr2              C 0 I 5
s manLeu1.NW_012103476v1      3408588  8 +   7543664 ----------AAAAAAAA
i manLeu1.NW_012103476v1    C 0 I 5
s colAng1.NW_012120598v1      5185691 10 -  13750039 --------TAAAAAAAAT
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26466034 15 +  50472720 TTTCTTTTCTAAATA---
i calJac3.chr21             I 2 C 0
s saiBol1.JH378168            8658591 15 +  13128814 TTTCTTTTTCCAATA---
i saiBol1.JH378168          I 2 C 0
s cebCap1.NW_016107322v1     13885754 15 -  14377064 tttctttTTCCAATT---
i cebCap1.NW_016107322v1    I 2 C 0
s aotNan1.NW_018487195v1      9123295 15 -   9889416 tttcttttttaAATA---
i aotNan1.NW_018487195v1    I 2 C 0
s otoGar3.GL873528           24829581 14 -  38779656 ----CTTCTTAAACAAAA
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18005842  7 +  39895921 --------ttaaata---
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2296901  7 +   3081153 --------TTAACTA---
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13404022 49 +  21915920 I

a score=1752494.000000
s hg38.chr21_GL383579v2_alt     52835 150 +    201197 AAA------CAGAGGTAAAAAGTGAGGTTTCTGTAAAGATGCGTCCTAAT-AATAGAAGTATTTCATTGTTTTGGGGTACTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAATATATGACACAAACATGCTT------CTTTATTCAAATT-C-TAGACT
s panTro5.chr21               8675240 151 +  33445071 AAA------CAGAGGTAAAAAGTGAGGTTTCTGTAAAGATGCGTCCTAATAAATAGAAGTATTTCATTGTTTTGGGGTACTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAATATATGACACAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22210754 151 +  46275980 AAA------CAGAGGTAAAAAGTGAGGTTTCTGTAAAGATGCGTCCTAATAAATAGAAGTATTTCATTGTTTTGGGGTACTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAATATATGACACAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193264 150 -  13858734 AAA------CAGAGGTAAAAAGTGAGGTTTCTGTAAAGATGCGTCCTAATAAATAGAAGTATTTCATTGTTTTGGGGTACTGTCTACACTGGAATTCAAGGACAGA-AAAA---CAGAAATATATGACACAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235525 151 +  32716333 AAA------CAGAGGTAAAAAGTGAGGTTTCTGTGAAAATGAGTCCTAATAAATAGAAGTATTTCATTGTATTGGGGTACTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAATATATGACACAAACATGCTT------CTTTATTCTAATT-C-TAGACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160619791 151 - 185818997 AAA------CAGAAGTAAAAAGTGAGGTTTCTGTAAAGATGAGTCCTAATAAATAGAAGTATGTCATTGCATTGGGGTGCTGTCTACACTGGAATTCAAGGACAGA-AAAG--CCAGAAACATATGACGCAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i rheMac8.chr3              I 5 C 0
s macFas5.chr3              167256766 151 - 192294377 AAA------CAGAAGTAAAAAGTGAGGTTTCTGTAAAGATGAGTCCTAATAAATAGAAGTATGTCATTGCATTGGGGTGCTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAACATATGACGCAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i macFas5.chr3              I 5 C 0
s macNem1.NW_012015021v1      4880643 151 -  30496662 AAA------CAGAAGTAAAAAGTGAGGTTTCTGTAAAGATGAGTCCTAATAAATAGAAGTATGTCATTGCATTGGGGTGCTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAACATATGACGCAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i macNem1.NW_012015021v1    I 5 C 0
s cerAty1.NW_012002954v1     13404071 151 +  21915920 aaa------ataaaataaaaaGTGAGGTTTCTGTAAAGATGAGTCCTAATAAATAGAAGTATGTCATTGCATTGGGGTGCTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAACATATGACGCAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i cerAty1.NW_012002954v1    I 49 C 0
s chlSab2.chr2               19905730 157 -  90373283 aaaaaaaaccagaagtaaaaaGTGAGATTTCTGTAAAGATGAGTCCTAATAAATAGAAGTATGTCATTGCATTGGGGTGCTGTCTACACTAGAATTCAAGGACAGA-AAAA--CCAGAAACATATGACGCAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i chlSab2.chr2              I 5 C 0
s manLeu1.NW_012103476v1      3408601 151 +   7543664 AAA------CAGAAGTAAAAAGTGAGGTTTCTGTAAAGATGAGTCCTAATAAATAGAAGTATGTCATTGCATTGGGGTGCTGTCTACACTGGAATTCAAGGACAGA-AAAA--CCAGAAACATAGGACGCAAACATGCTT------CTTTATTCAAATT-C-TAGACT
i manLeu1.NW_012103476v1    I 5 C 0
s colAng1.NW_012120598v1      5185702 151 -  13750039 ACA------CAGAAGTAAAAAGTGAGGTTTCCGTAACGACGAGTCCTAATAAACAAAAGTATTTCATTGCATTGGGGTGCCGTCTACAATGGAATTCAAGGACAGA-AAAA--CCAAAAACACATGACGCAAACTTGCTT------CTTTATTCAAATT-C-TAGACT
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26466049 151 +  50472720 ACA------CAGAAGTAAAAACTGAGGTTTCTGGAAAAGTGAGTCCTAATAAATAGAAATATTTCATTGTCTTGGGGTACTGTCTACACTGGAATTCAAGGACAGG-AAAA--CCAGAAATATATGACACAAACATGTTT------CTTTATTCAAATT-C-TGGACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8658606 151 +  13128814 AAA------CCGAAGTAAAAACTGAGGTTTCTGGAAAAGTGAGTCTTGATAAATAGAAGTATTTCATTGTCTTGGGGTACTGTCTACACTGCAATTCAAGGACAGG-AAAA--CCAGAAATATGTGACACAAACATGTTT------CTTTATTCAAATT-C-TGGATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13885769 151 -  14377064 AAA------CAGAAGTAAAAACTGAGGTTTCTGGAAAAGCGAATCCTAATAAATAGAAGTATTTAATTGTCTTGGGGTACTGTCTACACTGGAATTCAAGGACAGG-AAAA--CCAGAAATATGTGACACAAACATGTTT------CTTTATTCAAAGT-T-TGGACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9123310 151 -   9889416 AAA------CAGAAGTAAAAACTGAGGTTTCTGGAAAAGCGAGTCCTAATAAATAGAAGTATTTCATTGTCTTGGGGTAGTGTCTACACTGGAATTCAAGGACAGG-AAAA--CCAGAAATATGTGACACAAACATGTTT------CTTTATTCAAATT-C-TGGacc
i aotNan1.NW_018487195v1    C 0 I 55
s otoGar3.GL873528           24829596 153 -  38779656 -----------AAACTAGGAAGTGAAGCTTATGTGAAGATGAGTCCTAATAAATAAAAATCTTTCAATATATTTGGGAACCATCTACATGAGAATTAAGGGACAGG-AAAA--CTGGAAATGTCAGATAAAAATGTGCTTGGCTTGGTTTATCCAAATTAA-TAGACT
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18005849 153 +  39895921 aaa------taGAACCAGAAAGTAAGGTTTATGTGAAGTTAAGTCCTAATACAGAGAAATGTTTCCATGTACTTGGGTACTATCTACACTAGAATTCAGGGACAGGTAAAA--CCAGAAATTTCAGGCA-AAATATGCTT-----GGTTTATCTAGATT-TGTAGACC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2296908 153 +   3081153 AAA------CAGAATAAGAAAGTGAGGTCTATGTGAAGATAAGTGCCTATATGTAGAAATATTTCAATATATATGGGTACTACCTACATTACAATTCAAGGACAGA-AAAAAATCACAAATTTCAGACACAGGTATTCTT------TGTTTACCCAGTT-T-AATACA
i dasNov3.JH578070          C 0 C 0

a score=71563.000000
s hg38.chr21_GL383579v2_alt     52985 10 +    201197 TATAaaaacc
s panTro5.chr21               8675391 10 +  33445071 TATAaaaacc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22210905 10 +  46275980 TATAaaaacc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193414 10 -  13858734 TATAAaaacc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235676 10 +  32716333 TATaaaaacc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160619942 10 - 185818997 TATaaaaacc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167256917 10 - 192294377 TATaaaaacc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4880794 10 -  30496662 TATaaaaacc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13404222  9 +  21915920 TATAAaaa-c
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19905887 10 -  90373283 TATacaaacc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3408752 10 +   7543664 TATaaaaacc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5185853 10 -  13750039 TATaaaaacc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26466200 10 +  50472720 TATATaaacc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8658757 10 +  13128814 CATAaaaacc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13885920 10 -  14377064 TATaaaaacc
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24829749  5 -  38779656 --TTAAA---
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18006002  7 +  39895921 Taaaaaa---
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2297061  8 +   3081153 -ATTAAAAA-
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9123461 55 -   9889416 I

a score=975876.000000
s hg38.chr21_GL383579v2_alt     52995 101 +    201197 aaataaacaaaaacaaagtaaagcaaaccaacaaacaaac-aaaaaaa----CTTCAAAGTATGGGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
s panTro5.chr21               8675401 101 +  33445071 aaataaacaaaaacaaagtaaagcaaaccaacaaacaaac-aaaaaaa----CTTCAAAGTATGGGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22210915 101 +  46275980 aaataaacaaaaacaaagtaaagcaaaccaacaaacaaac-aaaaaaa----CTTCAAAGTATGGGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193424 101 -  13858734 aaataaacaaaaacaaagtaaagcaaaccaaccaacaaac-aaaaAAA----CTTCAGAGTATGGGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235686  95 +  32716333 aaataaacaaaaacaaagtaaagcaaacaaacaa-------aaaaaGA----CTTCAAAGTATGGGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160619952  95 - 185818997 aaataaacaaaaacaaagtaaagcaaacaaacaa-------acaaaAA----CTTCAAAGTATGGGTTCCTTTGGAAAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167256927  95 - 192294377 aaataaacaaaaacaaagtaaagcaaacaaacaa-------acaaaAA----CTTCAAAGTATGGGTTCCTTTGGAAAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4880804  95 -  30496662 aaataaacaaaaacaaagtaaagcaaacaaacaa-------acaaaAA----CTTCAAAGTATGGGTTCCTTTGGAAAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13404231  95 +  21915920 aaataaacaaaaacaaagtaaagcaaacaaacaa-------acaaaAA----CTTCAAAGTATGGGTTCCTTTGGAAAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19905897  95 -  90373283 aaataaacaaaaacaaagtaaagcaaacaaacaa-------actaaAA----CTTCAAAGTATGGGTTCCTTTGGAAACAGTTCAAGAAATTTGCTGCTGCTTCCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3408762  91 +   7543664 aaataaacaaaaacaaagtaaagcaaacaaaca-----------aaAA----CTTCAAAGTATGGGTTCCTTTGGAAAGAGTTCAAGAAGTTTGCTGCTGCTTCCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5185863  91 -  13750039 aaataaacaaaaacaaagtaaagcaaacaaaca-----------aaAG----CTTCAAAGTATGGGTTCCTTCGGAAAGAGTTCAAGAAATTTGCTGCTGATTCCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26466210  94 +  50472720 aaataaaccaaaacaaagcaaagcaagcaaacaaaaaaaa------------CTTCAAAATATGGTTTCTTCTGTGTAGAGTTCAATAAATTTGCTGCTGCTTTCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8658767 106 +  13128814 agataaacaaaaacaaagcaaagcacgcaagcaaaaaaaaaaaaaaaaaaacCTTCAAAATATGGGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13885930 102 -  14377064 agataaacaaaaaccaagcaaagcaagcaaacaacaacaacaataaaa----cTTCAAAATATGAGTTCTTCTGGGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9123516 104 -   9889416 aaataaacaaaaacaaagcaaagcaagcaaacaaacaaaccaacaaaaaa--cTTCAAAATATGGGTTCTTCTGTGCAGAGTTCAAGAAATTTGCTGCTGCTTCCA
i aotNan1.NW_018487195v1    I 55 C 0
s otoGar3.GL873528           24829754  70 -  38779656 AAATAAACAAAAACAAAGCAAGACAAATGAGCAA----------AAGA----CTCCAAAGTATGAAATCTAATGGGAA----------------------CCTTCA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18006011  91 +  39895921 aaaaagagagagacaagaaaaacaaaacaaacaa-----------aaa----CATCAAAATATGAATTTCTTTGGGCAGAGTTCTAGAAACTTGTTGCTGCTTCCA
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2297069  67 +   3081153 AAACAAACAAAATC--------------------------------------TCTCAAAGTATGAATTCTTCTAACCAGGGTTCCAGAA-CTTGCTGCTATTTCCG
i dasNov3.JH578070          C 0 I 243

a score=311573.000000
s hg38.chr21_GL383579v2_alt     53096 45 +    201197 ATTTAACAGAAA----GCTTT--TTT-TAAAAA-AGGACTCTTTTACTTGGTG
s panTro5.chr21               8675502 45 +  33445071 ATTTAACAGAAA----GCTTT--TCT-AAAAAA-AGGACTCTTTTATTTGGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211016 46 +  46275980 ATTTAACAGAAA----GCTTT--TCTAAAAAAA-AGGACTCTTTTATTTGGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193525 44 -  13858734 ATTTAACAGAAA-----CTTT--TTT-AAAAAA-AGGACTCTTTTATTTGGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235781 44 +  32716333 ATTTAACAGAAA----GCTTT--TTT-TAAAAA-A-GACTCTTTTATTTGATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620047 44 - 185818997 ATTTAACAGAAA----GCTTT--TTT-AAAAAA-A-GACTCTTTTATTTGATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167257022 44 - 192294377 ATTTAACAGAAA----GCTTT--TTT-AAAAAA-A-GACTCTTTTATTTGATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4880899 44 -  30496662 ATTTAACAGAAA----GCTTT--TTT-AAAAAA-A-GACTCTTTTATTTGATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13404326 44 +  21915920 ATTTAACAGAAA----GCTTT--TTT-AAAAAA-A-GACTCTTTTATTTGATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19905992 45 -  90373283 ATTTAACAGAAA----GCTTT--TAA-AAAAAAGA-GACTCTTTTATTTGATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3408853 44 +   7543664 ATTTAACAGAAA----GCTTT--TTT-AAAAAA-A-GACTCTTTTATTTGATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5185954 43 -  13750039 ATTTAACAGAAA----GCTTT--TTT-AAAAA--A-GACTCTTTTATTTGACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26466304 46 +  50472720 ATTTAACAGAAATATAGATTT--TTA-AAAAAA-A-GA--CTTTTAGTTGATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8658873 48 +  13128814 ATTTAACAAAAATATAGCTTTTCTTT-TTTTAA-A-GA--CTTTTATTTGATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13886032 36 -  14377064 ATTTAACAGAAATATAGCTTT--TTT---------------TTTNATTTGATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9123620 48 -   9889416 ATTTAACAGAAATATAGCTTT--TTT-AAAAAA-A-GACTCTTTTATTTGATG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24829824 44 -  38779656 AATTAACATAACTGTGGCCTT--TTC-TAA----A-GACTTTTTAACTT-ATG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18006102 40 +  39895921 TTTTAGTAGAATTTTGACATG--TTT-A------A-GGCTCCATTAT---ATG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2297136 243 +   3081153 I

a score=2190759.000000
s hg38.chr21_GL383579v2_alt     53141 211 +    201197 GAGCATT-------------------AAAATGAACAATAATTCCTATCTAGGTATAT--------------G---AACAACTACAAAGATTTCAGCTATACT-AAAATCTTCCAATTTTAGTGGAA-GAATGATCTTTC-AATTTTGTTAGTGGATT-AAAAATC-ATAGTGATATTATAACTTGAACTAATATTTTTAAA--AC----------ATGT--GTTAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTATAAGTT-
s panTro5.chr21               8675547 210 +  33445071 GAGCATT-------------------AAAATGAACAATAATTCCTATCTAGGTGTAT--------------G---AACAACTACAAAGATTTCAGCTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATGATCTTTC-AATTTTGTTAGTGGATT-AAAAATC-ATAGTGACATTATAACTTGAACTAATATTTTTAAA--AC----------ATGT--GTTAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTATAAG-T-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211062 210 +  46275980 GAGCATT-------------------AAAATGAACAATAATTCCTATCTAGGTGTAT--------------G---AACAACTACAAAGATTTCAGCTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATGATCTTTC-AATTTTGTTAGTGGATT-AAAAATC-ATAGTGACATTATAACTTGAACTAATATTTTTAAA--AC----------ATGT--GTTAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTATAAG-T-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193569 207 -  13858734 GAGCATT-------------------AAAATGAACAATAATTACCATCTAGGTGTAT--------------G---AACAACTACAAAGATTTCAGCTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATGATCTTTC-AATTTTGTTAGTGGATT-AAAAATC-ATAGTGA---TATAACTTGAACTAATATTTTTAAA--AC----------ATGT--GTTAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTATAAG-T-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9235825 208 +  32716333 GAGCATT-------------------AAAATGAACAATAATTCTTATCTAGGTGTAT--------------G---AACAACTACAAAGATTTCAGCTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATGACCTTTC-AATTTTGTTAGTGGATT-AAAAATC-AGAGTGATATTATAACTTAAACTAATATTTTTAAA--AC------------GT--GTTAA---------CACGTATTTCCTTATTAATGAAGATTTAAAACTATAAG-G-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620091 208 - 185818997 GAGCATT-------------------AAAATAAACAATAATTCTTGTCTAGGTGTAT--------------G---AACACCTATGAAGATTTCAGTTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATTATCTTTC-AATTTTGCTAGTGGATT-AAAAATC-AGAATGATATTATAACTTGAACTAATATTTTTAAA--AC------------GT--GATAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTGTAAG-T-
i rheMac8.chr3              C 0 I 12
s macFas5.chr3              167257066 208 - 192294377 GAGCATT-------------------AAAATAAACAATAATTCTTGTCTAGGTGTAT--------------G---AACACCTATGAAGATTTCAGTTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATTATCTTTC-AATTTTGCTAGTGGATT-AAAAATC-AGAATGATATTATAACTTGAACTAATATTTTTAAA--AC------------GT--GATAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTGTAAG-T-
i macFas5.chr3              C 0 I 11
s macNem1.NW_012015021v1      4880943 208 -  30496662 GAGCATT-------------------AAAATAAACAATAATTCTTGTCCAGGTGTAT--------------G---AACACCTATGAAGATTTCAGTTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATTATCTTTC-AATTTTGCTAGTGGATT-AAAAATC-AGAATGATATTATAACTTGAACTAATATTTTTAAA--AC------------GT--GATAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTGTAAG-T-
i macNem1.NW_012015021v1    C 0 I 12
s cerAty1.NW_012002954v1     13404370 208 +  21915920 GAGCATT-------------------AAAATGAACAATAATTCTTGTCTAGGTGTAT--------------G---AACACCTACAAAGATTTCAGTTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATTATCTTTC-AATTTTGCTAGTGGATT-AAAAATC-AGAATGATATTATAACTTGAACTAATATTTTTAAA--AC------------GT--GATAA---------CATATATTTCCTTATTAATGAAGATTTAAAACTGTAAG-T-
i cerAty1.NW_012002954v1    C 0 I 9
s chlSab2.chr2               19906037 209 -  90373283 GAGCATT-------------------AAAATGAACAATAATTCTTGTCTAGGTGTAT--------------G---AACACCTACAAAGATTTCAGTTATACT-AACATCTTCCAATTTTAGTGCAA-TAATCATCTTTC-AATTTTGCTAGCGGATTAAAAAATC-AGAATGATATTATAACTTGAACTAATAGTTTTAAA--AC------------GT--GATAA---------CACGTATTTCCTTATTAATGAAGATTTAAAACTGTAAG-T-
i chlSab2.chr2              C 0 I 8
s manLeu1.NW_012103476v1      3408897 208 +   7543664 GAGCATT-------------------AAAATGAACAATAATTCTAGTCTAGGTGTAT--------------G---AACACCTATGAAGATTTCAGTTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATTATCTTTC-AATTTTGCTAGTGGATT-AAAAATC-AGAATGATATTATAACTTGAACTAATATTTTTAAA--AC------------GT--GATAA---------CATGTATTTCCTTATTAATGAAGATTTAAAACTGTAAG-T-
i manLeu1.NW_012103476v1    C 0 I 8
s colAng1.NW_012120598v1      5185997 210 -  13750039 GAGCACT-------------------GAAATGAACAATAATTCTTGTCTAGGTGTAT--------------G---AACACCTACAAAGATTTCAGCTATACT-AAAATCTTCCAATTTTAGTGCAA-GAATTATCTTTC-AATTTTGTTAGTGGATT-AAAAATC-AGAATGATATTATAACTTGAACTAACATTTTTAAAACAC------------AT--GATAA---------CATGTATTTCCTTATTAATGAAGATTTAAAATTGTAAG-T-
i colAng1.NW_012120598v1    C 0 M 4042
s calJac3.chr21              26466350 206 +  50472720 AAGCATT-------------------AAAATGAACAATAATTCTTATCTAGTTGTAT--------------G---AACATCTATAAATATTTCAGCTCTCCT-AAAACCTTCCAATTTTAGTGGAA-GAGTAATCTTTC-AATTTGGTTAGTGGATT-AAAAATT-AGAGTGATATTATAACTTGAACTAATATTTTTAAA--AC------------ATGGGTTAA---------CATGTAT----TTATTAATGAAGATTTAAAACTGTAAG-G-
i calJac3.chr21             C 0 I 9
s saiBol1.JH378168            8658921 203 +  13128814 AAGCATT-------------------AAAATGAACAATAATTCGTATCTAGTTGTAT--------------G---AACAACTACAAAGATTTCAGCTATCCT-AAAACCTTCCAATTTTAGTGGAA-GAGTGATCTTTC-AATTTGGTTATTGGATT-AAAAATT-AGAGTGATATCATAACTTGAACTAATA-TTTTAAA--AC------------GT--GTTAA---------CATGTAT----TTATTAATGAAGATTTAAAACTATAAG-G-
i saiBol1.JH378168          C 0 I 9
s cebCap1.NW_016107322v1     13886068 206 -  14377064 AAGCATT-------------------AAAATGAACAATAATTCTTATCTGGTTGTAT--------------G---AACCACTACAAAGATTTCAGCTATCCT-AAAACCTTCCAATTTTAGTGGAA-GAGTGATCTTTC-AATTTGGTTAGTGGATT-AAAAATT-AGAGTGATATTATAACTTGAACTAATATTTTTAAA--AC------------ATGTGTTAA---------CATATAT----TTATTAATGAAGATTTAAAACTATAAG-G-
i cebCap1.NW_016107322v1    C 0 I 9
s aotNan1.NW_018487195v1      9123668 205 -   9889416 AAGCATT-------------------AAAATGAACAATAATTCTTATCTAGTTGTAT--------------G---AACAACTACAAAGATTTCAGCTATCCT-AAAACCTTCCAATTTTAGTGAAA-GAGTGATCTTTCAAATTTGGTTAGTGGATT-AAAAATT-AGAGTGATATTATAACTTGAACTAATATTTTTAAA--AC------------GT--GTTAA---------CATATAT----TTATTAATGAAGATTTAAAACTATAAG-G-
i aotNan1.NW_018487195v1    C 0 I 9
s otoGar3.GL873528           24829868 215 -  38779656 AAGGAA--------------------AAAATGGACAGCATTTCTTGTCTAGATATAT--------------A---AACAGCTACAAAGTTGTCAACTACGCT-AAAATCTTCCGATTTTATTGCAATGAGTGCATTTCC-AATCTTGGTGGTGGCTT-AAAATTT-GGAGTGATATTAGAA----AACTAATAAGTTAAAA--GCAAGTAAAATTAGGT--ATTAA---------CATGTATTTT-TCATTAATGAAGACTTTGAACTACAGG-G-
i otoGar3.GL873528          C 0 I 16
s canFam3.chr31              18006142 234 +  39895921 AAGCattataaaaaaataatttttcaaaaaaaaataataatttttCT-----TGTGT--------------GGCTATTAACCGCAAAGACATCAACTATAAT-AAGTCCTTCT-ATTATAGTGGAA-GAGTAAATTTTC-AAAGTTATCGGAGAGTT-AAAATTT-GGATTGACGTTGGAACTTAAAAGAGTGACGTTGGA--AC----------TTGA--ATTAATTTTAAAAGCATGTAT-GCTACAGTAATGAAGATATCAAGTTTCATG-G-
i canFam3.chr31             C 0 I 4
s dasNov3.JH578070            2297379 224 +   3081153 GAGCATA-------------------ACAATGAACACTATTCATTGCCTAGTTATATTTTTCTTTTGTGGAG---AAAAGAAAAGAAAAAGAAAACTGTAATAAAAATCTTCCAATATTAGTGGATTAAATGAAATTTC-AATTTTATTGGTGGGTT-AAAATTTGGGAGTGA---TGTAACATGAAATCATATTTTTAAA--AG----------ATGT--AGTAG---------TAAGCATTAT-TAATCAGTAAAGAATAGAAGCTTTAAG-AT
i dasNov3.JH578070          I 243 I 3

a score=418770.000000
s hg38.chr21_GL383579v2_alt     53352 53 +    201197 TTTTTTTT------CCAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAAATA------TCCAGTAAGA
s panTro5.chr21               8675757 53 +  33445071 TTTTTTTT------CCAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAAATA------TCAAGTAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211272 54 +  46275980 TTTTTTTT------CCAATTTTTAGGAGAGGCAAAAA----TTCAAAAAAAATA------TCAAGTAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193776 53 -  13858734 TTTTTTTT------CCAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAAATA------TCAAGTAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236033 52 +  32716333 TTTTTTTT-------GAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAAATA------TCAAGTAAGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620311 53 - 185818997 TTTTATTT------ACAATTTTTAGGAGAGGCAAAAA----TTA-AAAAAACTA------TCAAGTAAGA
i rheMac8.chr3              I 12 C 0
s macFas5.chr3              167257285 53 - 192294377 TTTTATTT------ACAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAACTA------TCAAGTAAGA
i macFas5.chr3              I 11 C 0
s macNem1.NW_012015021v1      4881163 53 -  30496662 TTTTATTT------ACAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAACTA------TCAAGTAAGA
i macNem1.NW_012015021v1    I 12 C 0
s cerAty1.NW_012002954v1     13404587 53 +  21915920 TTTTATTT------ACAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAGCTA------TCAAGTAAGA
i cerAty1.NW_012002954v1    I 9 C 0
s chlSab2.chr2               19906254 53 -  90373283 TTTTATTT------CCAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAACTA------TCAAGTAAGA
i chlSab2.chr2              I 8 C 0
s manLeu1.NW_012103476v1      3409113 53 +   7543664 TTTTATTT------ACAATTTTTAGGAGAGGCAAAAA----TTC-AAAAAACTA------TCAAGTAAGA
i manLeu1.NW_012103476v1    I 8 C 0
s calJac3.chr21              26466565 56 +  50472720 TTCTTTTT---AAAAAACTTTTTAAGAGAGGCAAAAA----TTC-AAAAAACGA------TCAGGTAAGA
i calJac3.chr21             I 9 C 0
s saiBol1.JH378168            8659133 55 +  13128814 TTCTTTTTAAAAAAAAAATTT----GAGAGACAAAAA----TTC-AAAAAACTA------TCAGGTAAGA
i saiBol1.JH378168          I 9 C 0
s cebCap1.NW_016107322v1     13886283 57 -  14377064 TTCTTTTTAAAAAAAAATTTT--AAGAGAGACAAAAA----TTC-AAAAAACAA------TCAAGTAAGA
i cebCap1.NW_016107322v1    I 9 C 0
s aotNan1.NW_018487195v1      9123882 56 -   9889416 TTCTTTTT---TAAAAAATTTTTAAGAGGGGCAAAAA----TTC-AAAAAATGA------TCAGGTAAGA
i aotNan1.NW_018487195v1    I 9 C 0
s otoGar3.GL873528           24830099 57 -  38779656 AAATTTCC------TCAATTTTGAGTAGAAACAAAAACTTTTTA-AAGAACCTA------TCATGTGAGT
i otoGar3.GL873528          I 16 C 0
s canFam3.chr31              18006380 56 +  39895921 TATTTTCC------TCAGTTTTGAGGAAAGATGGAAAACT-ATC-AGGGAAAAA------TCAAGGAATA
i canFam3.chr31             I 4 I 232
s dasNov3.JH578070            2297606 59 +   3081153 TATGTTCC------TTAATTTCAAGGAGAGGCAGAGT----TTA-GAGGAACTAAAGCTGTCAGATGAGT
i dasNov3.JH578070          I 3 C 0
e colAng1.NW_012120598v1      5186207 4042 -  13750039 M

a score=65045.000000
s hg38.chr21_GL383579v2_alt     53405  9 +    201197 AAC-----CAGAGG
s panTro5.chr21               8675810  9 +  33445071 AAC-----CAGAGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211326  9 +  46275980 AAC-----CAGAGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193829  9 -  13858734 AAC-----CAGAGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236085  9 +  32716333 AAC-----CAGAGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620364 14 - 185818997 AACCAAATCAGAGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167257338 14 - 192294377 AACCAAATCAGAGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881216 14 -  30496662 AACCAAATCAGAGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13404640 14 +  21915920 AACCAAATCAGAGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19906307 14 -  90373283 AACCAAATCAGAGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409166 14 +   7543664 AACCAAATCAGAGG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26466621  9 +  50472720 AAT-----CAAAGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8659188  9 +  13128814 AAT-----CAAAGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13886340  9 -  14377064 AAT-----CAAAGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9123938  9 -   9889416 AAT-----CAAAGG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24830156  9 -  38779656 TAT-----CGGAGG
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2297665  9 +   3081153 AAT-----CAGAGA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18006436 232 +  39895921 I
e colAng1.NW_012120598v1      5186207 4042 -  13750039 M

a score=1215645.000000
s hg38.chr21_GL383579v2_alt     53414 138 +    201197 AAAAAAATCAACTGGATAGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA------------------------------------------TAAAAA---------------TAACGTG-----AAGTATTGGCTGGTAAAAATAGTCTACAGATAGTTATTGAAGAACCTAAGAAAACCCATTATTGACCCCAACAGA-------
s panTro5.chr21               8675819 138 +  33445071 AAAAAAATCAACTGGATAGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA------------------------------------------TAAAAA---------------TAACGTG-----AAGTATTGGCTGGTAAAAATAGTCTACAGATAGTTATTGAAGAACCTAAGAAAACCCATTATTGACCCCAACGGA-------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211335 138 +  46275980 AAAAAAATCAACTGGATAGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA------------------------------------------TAAAAA---------------TAACGTG-----AAGTATTGGCTGGTAAAAATAGTCTACAGATAGTTATTGAAGAACCTAAGAAAACCCATTATTGACCCCAACGGA-------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193838 137 -  13858734 AAAAAAATCAACTGGATAGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA------------------------------------------TAAAAA----------------AACGTG-----AAGCATTGGCTGGTAAAAATAGTCTACAGATAGTTACTGAAGAACCTAAGAAAACCCATTATTGACCCCAACAGA-------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236094 136 +  32716333 AAAAAAATCAACTGGATCGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AA--------------------------------------------AAAAA---------------TAATGTG-----AAGCATTGGCTGGTAAAAATAGTCTACAGATAGCTATTGAAGAACCTAAGAAAACCCATTATTGACCCCAACAGA-------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620378 137 - 185818997 AAAAAAATCAACTGGATTGAGCAGAACTATATGTCCT-----AAGCTGGGGG-GAA-------------------------------------------AAAAA---------------TAACGTG-----AAGCACAGGCTGGTAACAATAGTCTACAGATAGATATTAGAGAACCTAAGAAAACCCATTATTGACCCCAATGGA-------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167257352 137 - 192294377 AAAAAAATCAACTGGATTGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA-------------------------------------------AAAAA---------------TAACGTG-----AAGCACAGGCTGGTAACAATAGTCTACAGATAGATATTAGAGAACCTAAGAAAACCCATTATTGACCCCAATGGA-------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881230 137 -  30496662 AAAAAAATCAACTGGATTGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA-------------------------------------------AAAAA---------------TAACGTG-----AAGCACAGGCTGGTAACAATAGTCTACAGATAGATATTAGAGAACCTAAGAAAACCCATTATTGACCCCAATGGA-------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13404654 137 +  21915920 AAAAAAATCAACTGGATTGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAA-------------------------------------------AAAAA---------------TAACGTG-----AAGCACAGGCTGGTAACAATAGTCTACAGATAGATATTGGAGAACCTAAGAAAACCCATTATTGACCCCAATGGA-------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19906321 137 -  90373283 AAAAAAATCAACTGGATTGAGCAGAACTATGTGTCCT-----AAGCTGGGGT-AAA-------------------------------------------AAAAA---------------TAACCTG-----AAGCACAGGCTGGTAACAATAGTCTACAGATAGATATTGGAGAACCTAAGAAAACCCATTATTGACCCCAATGGA-------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409180 138 +   7543664 AAAAAAATCAACTGGATTGAGCAGAACTGTGTGTCCT-----AAGCTGGGGGAAAA-------------------------------------------AAAAA---------------TAACGTG-----AAGCACAGGCTGGTAACAATAGTCTACAGATAGATATTAGAGAATCTAAGAAAACCCATTATTGACCCCACTGGA-------
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26466630 139 +  50472720 AAAAAAATCAACTGGATAGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAC-----------------------------------------ATAAAAA---------------TAACACG-----AAGCGTAGGCTGGTAAAAAGAGTCTACAAACAGACATTGAAAAACGTAAGAAAACTCCTGATGGGGCTCAACAGA-------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8659197 139 +  13128814 GAAACAATCAACTGGATAGAGCAAAACTATGTGTCCT-----AAGCTGGGGG-AAT-----------------------------------------ACAGAAA---------------TAACATG-----AAGCATAGGCTGGTAAAAATGGTCTACAAACAGACATTGAAAAACGTAAGAAAACTCATGATTGGGTCCAACAGA-------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13886349 139 -  14377064 AAAAAAATCAACTGGATAGAGCAGAACTATGTATCCT-----AAGCTGGGGG-AAT-----------------------------------------ACAAAAA---------------TAACACG-----AAGCATAGGCTGGTAAAAATAGTCTACAAACAGACATTGAAAAACGTAAGAAAACTCATGATTGGGCCCAACAGA-------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9123947 139 -   9889416 AAAAAAATCAACTGGGTAGAGCAGAACTATGTGTCCT-----AAGCTGGGGG-AAT-----------------------------------------ACAAAAA---------------TAACACG-----AAGCATAGGCTGGTAAAAATAGTCTACAAACAGACATTGGAAAACATAAGAAAACTCATGACTGGGCCCAACaga-------
i aotNan1.NW_018487195v1    C 0 I 148
s otoGar3.GL873528           24830165 125 -  38779656 AAAAAA--CAACTGGA--------------ATTTTTT-----AATCAGAGGA-AAA-----------------------------------------AAAAAAC---------------TTGTATGCAGATAAAAATAAGC---TCAAAATAGGTTATAGATAGATTCTGAAGAACTTAAGATAACACATGAATGAGCCCAATGGG-------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18006668 142 +  39895921 AAAAAAATCAATTGGAT-GGGCATAATTATGTGCCTTAGAGAAAAGTGAAAG-CAA-----------------------------------------TGATAAC---------------TAACATA-----AATCATATGCATGTAA-AATAGCTTACAGATAGATAATGAAGAACCTGAGACAGCCCATCAATGGGCTCAACAGA-------
i canFam3.chr31             I 232 C 0
s dasNov3.JH578070            2297674 197 +   3081153 ATAAAGATCAATTGGATGGGACACAGTGAAGTGTCTG-----AAGAGAAAAA-AAAATATCAACAAATGCTTTATTCATAAACATCAACATATAATTATAAAAATAAATGTGCTGGTTTTAACACA-----AATCATACACAGGTTAAAATAGTTTAAAGATAGATACTGATAAATC--AGGAAAT---TAAGTGGATCCAATAACCTTTACA
i dasNov3.JH578070          C 0 C 0
e colAng1.NW_012120598v1      5186207 4042 -  13750039 M

a score=2781202.000000
s hg38.chr21_GL383579v2_alt     53552 339 +    201197 CAAAAGACAAT-GAAACTGCAATGGCGTTAATTGGTACTTAAAAGCTTTGGTGCTCTTCTGAACATTGAAGTT-AAAAAATTTAAATACACTATAACCCCTGCATGCTTAACTTTCCTTCC--TCCCAATTCCACTCTGCTTCCTCCA--C--ACTTCCAAATCTCCAAATTGTGCAGTCACCTAAAATATTTACCAGGTCAATTTTT-CTTTATCTCTTCTCAGGATACCTTTGCTGATATTGCCAGGAAAGCTAGATAG-AGTGACCTCAACACTGCCTTTCTAAATAATGTTGCTTCTTTTGTCCTCCTGAAGCCTCTACAAA---CATGTTGCCAGAGGTACTTCACG
s panTro5.chr21               8675957 339 +  33445071 CAACAGACAAT-GAAACTGCAATGGCGTTAATTGGTACTTAAAAGCTTTGGTGCTCTTCTGAACATTGAAGTT-AAAAAATTTAAATACACTATAACCCCTGCATGCTTAACTTTCCTTCC--TCCCAATTCCACTCTGCTTCCTCCA--C--ACTTCCAAATCTCCAAATTGTGCAGTCACCTAAAATATTTACCAGGTCAATTTTT-CTTTATCTCTTCTCAGGATACCTTTGCTGATATTGCCAGGAAAGCTAGATAG-AGTGACCTCAACACTGCCTTTCTAAATAATGTTGCTTCTTTTGTCCTCCCGAAGCCTCTACAAA---CATGTTGCCAGAGGTACTTCACG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211473 339 +  46275980 CAACAGACAAT-GAAACTGCAATGGCGTTAATTGGTACTTAAAAGCTTTGGTGCTCTTCTGAACATTGAAGTT-AAAAAATTTAAATACACTATAACCCCTGCATGCTTAACTTTCCTTCC--TCCCAATTCCACTCTGCTTCCTCCA--C--ACTTCCAAATCTCCAAATTGTGCAGTCACCTAAAATATTTACCAGGTCAATTTTT-CTTTATCTCTTCTCAGGATACCTTTGCTGATATTGCCAGGAAAGCTAGATAG-AGTGACCTCAACACTGCCTTTCTAAATAATGTTGCTTCTTTTGTCCTCCCGAAGCCTCTACAAA---CATGTTGCCAGAGGTACTTCACG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8193975 339 -  13858734 CAACAGACAAT-GAAACTGCAATGGCGTTAATTGGTACTTAAAAGCTTTGGTGCTCTTCTGAACATTGAAGTT-AAAACATTTAAATACACTATAACCCCTGCATGCTTAACTTTCCTTCC--TCCCAATTCCACTCTGCTTCCTCCA--C--ACTTCCAAATCTCCAAATTGTGCAGTCACCTAAAATATTTACCAGGTCAATTTTT-CTTTATCTCTTCTCAGGATACCTTTGCTGATATTGCCAGGAAAGCTAGATAG-AGTGACCTCAACACTGCCTTTCTAAATAATGTTGCTTCTTTTGTCCTCCTGAAGCCTCTACAAA---CATGTTGCCAGAGGTACTTCATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236230 339 +  32716333 CAACAGACAAT-GAAATTGCAATGGTGTCAACTGGTACTGAAAAGCTTTGGTGCTCTTCTGAACACTGAAGTT-AAAAAATTTAAATACAATATAACCCTTGCATGCTTAACTTTCCTTCC--TCCCAGTTCCAGTCTGCTTCCTCCA--C--ACTTCCAAATCTCCAAATTGTGCAGTCACCTAAAATATTTAACAGGTCAATTTTT-CTTTATCTCTTCTCAGGATACCTTTGCTAATATTGCCAGGAAAGCTACATAG-AGTGACCTCAACACTGCCTTTCTAAATAATGCTGCTTCTTGTGTCCTCCTGAAGCCTCTACAAA---CATGTTGCCAGAGGTACTTTACG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620515 336 - 185818997 CAACAGACAAT-GAAATTGCAATGGCGTCTGTTGGTACTTAAAAGCTTTGGTGGTCTTCTGAACATTGAAGTT-TAAAAATTTAAATGCAATATAGCCCATGCATGCTTAACTTTCCTCCC--TCCCAATTCCACTCTGCTTCCTCCA--T--ACTTCTAAATCTCCAAG--GTGCAGTCACCTAAAAGAGTTACCATGTCAATTTTT-CTTTATCTCTTCTCGGGATACTTTTGCTGATATTGCCAGAAAAGCTAGATAG-AGTGACCTCAGCACTGCTCTTCTAAATAATGTTGCTTCTTGCGGCCTCCTGAAGCCTCCACAAA---CATG-TGCCAGAGGTACTTTACG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167257489 336 - 192294377 CAACAGACAAT-GAAATTGCAATGGCGTCTGTTGGTACTTAAAAGCTTTGGTGGTCTTCTGAACATTGAAGTT-TAAAAATTTAAATGCAATATAGCCCATGCATGCTTAACTTTCCTCCC--TCCCAATTCCACTCTGCTTCCTCCA--T--ACTTCTAAATCTCCAAG--GTGCAGTCACCTAAAAGAGTTACCATGTCAATTTTT-CTTTATCTCTTCTCGGGATACTTTTGCTGATATTGCCAGAAAAGCTAGATAG-AGTGACCTCAGCACTGCTCTTCTAAATAATGTTGCTTCTTGCGGCCTCCTGAAGCCTCCACAAA---CATG-TGCCAGAGGTACTTTACG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881367 336 -  30496662 CAACAGACAAT-GAAATTGCAATGGCGTCTGTTGGTACTTAAAAGCTTTGGTGGTCTTCTGAACATTGAAGTT-TAAAAATTTAAATGCAATATAGCCCATGCATGCTTAACTTTCCTCCC--TCCCAATTCCACTCTGCTTCCTCCA--T--ACTTCTAAATCTCCAAG--GTGCAGTCACCTAAAAGAGTTACCATGTCAATTTTT-CTTTATCTCTTCTCGGGATACGTTTGCTGATATTGCCAGAAAAGCTAGATAG-AGTGACCTCAGCACTGCTCTTCTAAATAATGTTGCTTCTTGCGGCCTCCCAAAGCCTCCACAAA---CACG-TGCCAGAGGTACTTCACG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13404791 336 +  21915920 CAACAGACAAT-GAAATTGCAATGGCGTCTGTTGGTACTTAAAAGCTTTGGTGGTCTTCTGAACATTGAAGTT-TAAAAATTTAAATGCAATATAGCCCATGCATGCTTAACTTTCCTCCC--TCCCAATTCCACTCTGCTTCCTCCA--T--ACTTCTAAATCTCCAAG--GTGCAGTCACCTAAAAGAGTTACCATGTCAATTTTT-CTTTATCTCTTCTCGGGATACTTTTGCTGATATTGCCAGAAAAGCTAGATAG-AGTGACCTCAACACTGCTCTTCTAAATAATGTTGCTTCTTGCGGCCTCCTGAAGCCTCCACAAA---CATG-TGCCAGAGGCACTTTACG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19906458 337 -  90373283 CAACAGACAAT-GAAATTGCAATGGCGTCTGTTGGTACTTAAAAGCTTTGGTGGTCTTCTGAACATTGAAGTT-TAAAAATTTAAATGCAATATAGCCCATGCATGCTTAACTTTCCTCCC--TCCCAATTCCATTCTGCTTCCTCCA--T--ACTTCTAAATCTCCAAG--GTGCAGTCACCTAAAAGAGTTACCATGTCAATTTTT-CTTTATCTCTTCTCGGGATACTTTTGCTGATATTGCCAGAAAAGCTAGATAG-AGTGACCTCGGCACTGCTCTTCTAAATAATGTTGCTTCTTGCGGCCTCCTGAAGCCTCCACAAA---CATGTTGCCAGAGGTACTTTACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409318 337 +   7543664 CAACAGACAAT-GAAATTGCAATGGCGTCTGTTGGTACTTAAAAGCTTTGGTGGTCTTCTGAACATTGAAGTT-TAAAAATTTAAATGCAATATAGCCCACGCGTGCTTAACTTTCCTCCC--TCCCAATTCCACTCTGCTTCCTCCA--T--ACTTGTAAATCTCCAAG--GTGCAGTCACCTAAAAGAGTTACCATGTCAATTTTT-CTGTATCTCTTCTCGGGATACTTTTGCTGATATTGCCAGAAAAGCTAGATAG-AGTGACCTCAGCACTGCTCTTCTAAATAATGTTGCTTCTTGCGGCCTCCTGAAGCCTCCACAAA---CATGTTGCCAGAGGTACTTTACG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26466769 341 +  50472720 CAACAGACAATCAAAATGGCAATGGCATCAACTGGTATAAAAAAGCTTTGATGCTCTTCTG-ATGTTGAAGTT-AAAAAATTTAAATACAGTATAGCCCGTGCATGTTTAACTTTCTTCCC--TTTCAATTCCACTGTGGTTCCTCCA--C--ACTTTTAAATCTCCAAATTGACCAGTCTCCAAAAATACTTACCAGATCAATTTTT-CTTTGTCTCTTCTCAGGATCCCTCTGTCGATATTGTCAGGAAAGCTGTATAG-AGTGACCTCA-CACTGCCCTTTTAAATAATGTTGCTTCTTGTGTCCTCCTGAAGCTTTCACAAATATCATGTTGCCAGAGGCAGTCTATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8659336 341 +  13128814 CAACAGACAAT-GAAATGGCAATGGCATCAACTGGTATAAAAAAGCTTCGATGCTCTTCTG-ATATTGAAGCTAAAAAAATTTAAATACAATATAGTGCATGCATGTTTAACTTTCCAACC--TCCCAATTCCACTATGGTTCCTCTA--C--ACTTTTAAATCTCCAAATTGTCTAGTCTCCAAAAATACTTACCAGATCAATTTTT-CTTTATCTCTTCTCAGGATCCCTTTATTGATATTGTCAGGAAAGCTATATAG-AGTAACCTCA-CACTGCCCTTCTAAATAATGTTGCTTCTTGTGTCATCCTGAAGCTTCTACAAATAACATGTTGCCAGAGGCACTCTATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13886488 341 -  14377064 CGACAGACAAT-GAAATGGCAATGGCATCAACTGGTATGAAAAAGTTTTGATGCTCTTCTG-ATGTAGAAGTTAAAAAAATTTAAATACAGTATAGCCCATGCATGCTTAACTTCCCTCCC--TCCCAATTCCACTGTGGTTCCTCCA--C--ACTTTTAAATCTCCAAATTGTCCAGTCTCCAAAAATACTTACCAGATCAATTTTT-CTTTATCTCTTCTCAGGATCCCTTTGTTAATATTGCCAGGAAAGCTATATTG-AGTGACCTCA-CACTGCCCTTTTAAATAATATTGCTTCTTGTGTCATCCTGAAGCTTCTACAAATAACATGTTGCCAGAGGCACTCTGTG
i cebCap1.NW_016107322v1    C 0 I 34
s otoGar3.GL873528           24830290 325 -  38779656 TAACATA-GAC-AAAATAGCAACCACAACGATTGGTATTCAGAAGCGTTAGTGCTCTCCTGAAAGCTGATGTT-TAATGATTTAAATATAGTACAGCTCATACAAGTTTCTCTGCCCTCCT--TCCCAAATTC-CCCCGTTTCCTCGA--CTTACTTCTAGAATACCAAATTGTAAAGTCATCTGAAGTTTGTGCCGGTTCAA-TTTT-CTCCATTTCTTCTCTGGTTAGCTTTGTTGATATTTTCAGGAAAGCCATATAG-GGTGACCTCAGCACTGTCCTTCGAAATAATGTCACCTCTCGCATTTTCTTAAAGCCTCCACAAA---TA-------------ATTTTATT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18006810 335 +  39895921 ---CAAA-AAT-GAAATAGCAACTGCAACAATTGGT-TTTAGAAACCTTAATGTGCATTTGAATGCTGAAGTT-AAAGAACTGAAATATTGCAGAGCCCAAGTTTTTTCTGCCCTCCTT----TCCAAATTCTACCCAAATTCCTC----T--AATTCTAAATTACTGACTTTTAAAGTTACCTGAAATATATACTGCATCAATTTTTCCTCTGTTTCTCTTCAGGATAACCTTTTTTATATTTCCAGGAAAGCCACATAGAAGAGGATTCAGTTCTGCTCTCCTAAAGAGTACTACTTCTTGTATCCTAATGACACTTCCCCAAATAACATTTTGCCAGGGACACTTTCTA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2297871 332 +   3081153 --------AAT-GAAATAGCAACTTCAGCAATTGGTG-TTAAAAGATTTAATACACTTTTGCATGCCAAAGTTGAAAAAAATTAAATATACTCTACCCTGTGTTT------CTCTCCTCCCATACCTACTTTGACCCAGATTCCTTTAATT--TCTTCAGGAATATCCAGTTATACATTCACTTGACATATACACTATGTCCATTTTT-CTCCATTTCCACCTATGATACTTTTATTGGTGTTGCTAGTGGAGCCACACAC-AGCAGTCTTAACATGACCCTTCAGAATATCATTACTTCTTTCTTTCTACTGAAGTCTTCCCAAGTAACATTTTACTAGTGGTACTTTTTA
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e colAng1.NW_012120598v1      5186207 4042 -  13750039 M

a score=199521.000000
s hg38.chr21_GL383579v2_alt     53891 31 +    201197 CTAAGACTTCACTGCTAAGGTAGGGAGAATC-----------------------------------------
s panTro5.chr21               8676296 31 +  33445071 CTAAGACTTCACTGCTAAGGTAGGGAGAATC-----------------------------------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211812 31 +  46275980 CTAAGACTTCACTGCTAAGGTAGGGAGAATC-----------------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194314 31 -  13858734 CTAACACTTCACTGCTAAGGTAGGGAGAATC-----------------------------------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236569 26 +  32716333 CTAA-----CACTGCTAAGGTAAGGAGAATC-----------------------------------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620851 31 - 185818997 CTAACACTTCACTGCTAAGGTATGGAGAATC-----------------------------------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167257825 31 - 192294377 CTAACACTTCACTGCTAAGGTATGGAGAATC-----------------------------------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881703 31 -  30496662 CTAACACTTCACTGCTAAGGTATGGAGAATC-----------------------------------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405127 31 +  21915920 CTAACACTTCACTGCTAAGGTATGGAGAATC-----------------------------------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19906795 31 -  90373283 CTAACACTTCACTGCTAAGGTATGGAGAATC-----------------------------------------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409655 31 +   7543664 CTAACACTTCACTGCTAAGGTATGGAGAATC-----------------------------------------
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26467110 31 +  50472720 CTAAATCTTACCTGCTAAGGTATGGAGAATC-----------------------------------------
i calJac3.chr21             C 0 I 5
s saiBol1.JH378168            8659677 31 +  13128814 CTAAATCTGATCTGCTAAGGTGTGGAGAATC-----------------------------------------
i saiBol1.JH378168          C 0 I 5
s otoGar3.GL873528           24830615 28 -  38779656 CTAAAACTGCA-TGCTAAGGTTT--AGAATC-----------------------------------------
i otoGar3.GL873528          C 0 I 43
s canFam3.chr31              18007145 30 +  39895921 ACAGAACTACACAGCTAGTGTG-GGAGAATC-----------------------------------------
i canFam3.chr31             C 0 I 32
s dasNov3.JH578070            2298203 72 +   3081153 CTAAAATGTTTCTGCTAAGGTATGAAGAAGTATTTTCTTCTATTCCATGCTTATTCAAAATGCTTATGTGTT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13886829 34 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e colAng1.NW_012120598v1      5186207 4042 -  13750039 M

a score=1350884.000000
s hg38.chr21_GL383579v2_alt     53922 183 +    201197 TGGTGTCAACTTGTCTAGTTAAGTGAAAGGAGAGGTGGCCCTAAATTTCAAATATATCTGTGTGAACACTGTTTATATTTCTGTTTGTAAAAGATTGCA--ATCGGAGACATAGAATGGGATTCATCTTGGGTAGCTGGTGGATCAT--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCATATGA
s panTro5.chr21               8676327 175 +  33445071 TGG--------TGCCTAGTTAAGTGAAAGGAGAGGTGGCCCTAAATTTCAAATATATCTGTGTGAACACTGTTTATATTTCTGTTTGTAAAAGATTGCA--ATTGGAGACACAGAATGGGATTCATCTTGGGTAGCTGGTGGATCAT--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCATATGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22211843 175 +  46275980 TGG--------TGCCTAGTTAAGTGAAAGGAGAGGTGGCCCTAAATTTCAAATATATCTGTGTGAACACTGTTTATATTTCTGTTTGTAAAAGATTGCA--ATTGGAGACACAGAATGGGATTCATCTTGGGTAGCTGGTGGATCAT--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCATATGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194345 186 -  13858734 TGGTGTCAACTTGTCCAGTTAAGTGAAAGGAGAGGTGGCCCTAAATTTCAAATATATCTGTGTGAACACTGTTTATATTTCTGTTTGTAAAAGATTGCA--ATCGGAGACATAGAATGGGACTCATCTTGGGTAGCTGGTGGATCAT--T---CCACAGCTAT---TTGTCA--------TAACCA-C-A-AATTCATCGCACATGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236595 183 +  32716333 TGGTGTCAACTTGTCTAGTTAAGTGAAAGGAGAGGTGGCCCTAAATTTCAAATATATCTGTGTGAACACTGTTTATATTTCTGTTTGTAAAAGATTGCA--ATCTGAGACATAGAATGGGATTCATCTTGGGTATTTGGTGGATCAT--T---CCACA---GA---CTGTCA--------TAACCC-C-A-AATTCATCGCACCTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160620882 177 - 185818997 TGGTGTCAACTTGTCTAGTTAAGCGAAAGGAGAGGTGGCCCTAAATTTCAAATACATCTGCGTGAACACTG------TTTCTGTTTGTAAAAGCTTACA--ATCTGAGACAAAGAAAGGGATTCATCTTGGGTAGTTGGTGGACCAA--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCAGCTGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167257856 177 - 192294377 TGGTGTCAACTTGTCTAGTTAAGCGAAAGGAGAGGTGGCCCTAAATTTCAAATACATCTGCGTGAACACTG------TTTCTGTTTGTAAAAGCTTACA--ATCTGAGACAAAGAAAGGGATTCATCTTGGGTAGTTGGTGGACCAA--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCAGCTGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881734 177 -  30496662 TGGTGTCAACTTGTCTAGTTAAGCGAAAGGAGAGGTGGCCCTAAATTTCAAATACATCTGCGTGAACACTG------TTTCTGTCTGTAAAAGCTTACA--ATCTGAGACAAAGAAAGGGATTCATCTTGGGTAGTTGGTGGACCAA--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCAGCTGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405158 177 +  21915920 TGGTGTCAACTTGTCTAGTTAAGCGAAAGGAGAGGTGGCCCTAAATTTCAAATACATCTGCGTGAACACTG------TTTCTGTTTGTAAAAGCTTACA--ATCTGAGACAAAGAAAGGGATTCATCTTGGGTAGTTGGTGGACCAA--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCAGCTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19906826 177 -  90373283 TGGTGTCAACTTGTCTAGTTAAGCGAAAGGAGAGGTGGCCCTAAATTTCAAATACATCTGCGTGAGCACTG------TTTCTGTTTGTAAAAGCTTACA--ATCTGAGACAAAGAAAGGGATTCATCTTGGGTAGTTGGTGGACCAA--T---CCACA---AA---CTGTCA--------TAATCC-C-A-AATTCATCGCAGCTGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409686 177 +   7543664 TGGTGTCAACTTGTCTAGTTAAGCAAAAGGAGAGGTGGCCCTAAATTTCAAATACATCTGCGTGAACACTG------TTTCTGTTTGTAAAAGCTTACA--ATCTGAGAAAAAGAAAGGGATTCATCTTGGGTAGTTGGTGGACCAA--T---CCACA---AA---CTGTCA--------TAACCC-C-A-AATTCATCGCAGCTGG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26467146 182 +  50472720 TGCTGTCAATTTGACTAGTT-AGTGAAAGGAGTGGTGGCCTTAAATTTCAAATAGATCTGTGTGAACGCTGTTTCTGTTTCTGTTTGTAAATGTTTACT--ATCTGAGGCATAAAAAGCGATTCTTGTTGGGTAGTTGGTGGATCAA--T---CAACA---AA---CTGTCA--------TAACCC-C-C-AAATACACACACCTGG
i calJac3.chr21             I 5 C 0
s saiBol1.JH378168            8659713 182 +  13128814 TGGTGTCAATTTGTCTAGTT-AGTGAAAGGAGTGGTGGCCTTAAATTTCAAATATACCTGTGTGAACACTGTTTCTGTTTCTGTATGTAAACAGAAACT--GT------CATAAAAAGCGATTCTTGTTGGGTAGTTGGTGGATCAA--T---CAACA---AA---CTGTCAAACTGTCTTAGCCC-C-T-AAAT--ACACACCTGA
i saiBol1.JH378168          I 5 C 0
s cebCap1.NW_016107322v1     13886863 182 -  14377064 TGGTGTCAATTTGTCTAGTT-AGCGAAAGGAGTGGTGGCCTTAAATTTCAAATATACCTGTGTGAACACTTTTTCTGTTTCTGTTTGTAAAAGTTTACT--ATCTGAGACATAAAAAGCGATTCTTGTTGGGTAGTTGGTGGATCAA--T---CAACA---AA---CTGCCA--------TAACCC-C-C-AAATACACACACCTGG
i cebCap1.NW_016107322v1    I 34 C 0
s otoGar3.GL873528           24830686 174 -  38779656 TGGTGTCTATTTG-CTAGTT-----AAAGGAGTGATAACATGAAATTTCAGATATCTCTGCATGACTACTT------TTTATGTTTGTAAAAGTTTAGT--AACTGAAACATAGGAAGAAATTTTTGTT-TGTAGTTATTGGACCAA--TTTCCCAAA---CT---CTGTTC--------TGACCG-TAA-AATTCTTTGCGTCTGG
i otoGar3.GL873528          I 43 C 0
s canFam3.chr31              18007207 187 +  39895921 TGGTTTTACTTTGTCTAGTTAAATAAGCTAAGTAATGGTTTGAGATTTTAAATATCTATGAGTGACAACTTTTGAAAATTTGTATTGGAAGTGCTTACT--ATCTAAGCCTTGGACGGGAATTCATTTTGGGTCGTTACTAGACCAA--C---CTATA---AAATTCTGTTC--------TGGCCA-C-ACAATTCCTCTTACCTGG
i canFam3.chr31             I 32 C 0
s dasNov3.JH578070            2298275 186 +   3081153 TGGTGTGAATTTGTCTAGTTAAGTAATAGG-GTGATGGCCTGAAATTTTAAATATCTTAGGGTGACCACCTTTTCTGTTTCTGCTGGAAAGCACTTACACTATCTAAAACTTATGCAGGAAATCACGTTGGCTGGTTG-TGGACCAACTT---CTCAA---AT---GTGTTC--------TGGCCCAC-A-AATTCCTCTCACGTGG
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e colAng1.NW_012120598v1      5186207 4042 -  13750039 M

a score=310921.000000
s hg38.chr21_GL383579v2_alt     54105 27 +    201197 TATGTCAACATTTTGGCAGGTGCTTAG
s panTro5.chr21               8676502 27 +  33445071 TATGTCAACATTTTGGCAGGTGCTTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212018 27 +  46275980 TATGTCAATATTTTGGCAGGTGCTTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194531 27 -  13858734 TATGTCAACATTTTGGCAGGTGCTTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236778 27 +  32716333 TATGTCAACATTTTGGCAGGTGCTTCG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160621059 27 - 185818997 TATGTCAACATTTTGGCAGATGCTTAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258033 27 - 192294377 TATGTCAACATTTTGGCAGATGCTTAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881911 27 -  30496662 TATGTCAACATTTTGGCAGATGCTTAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405335 27 +  21915920 TATGTCAACATTTTGGCAGATGCTTAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907003 27 -  90373283 TATGTCAACATTTTGGCAGATGCTTAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409863 27 +   7543664 TATGTCAACATTTTGGCAGATGCTTAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5190257 27 -  13750039 TATGTCAGCATTTTGGCAGATGCTTAC
i colAng1.NW_012120598v1    M 4042 C 0
s calJac3.chr21              26467328 27 +  50472720 TGTGTCAACATTTTGGCAGGTGCTTAG
i calJac3.chr21             C 0 I 350
s saiBol1.JH378168            8659895 27 +  13128814 TGTGTCAACATTTTGGCAGGTGTTTAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13887045 27 -  14377064 CGTGTCAACATTTTGGCAGGTGCTTAG
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24830860 27 -  38779656 CGTGTTGACGTTTTGGTAAGTGTTTAG
i otoGar3.GL873528          C 0 I 3
s canFam3.chr31              18007394 27 +  39895921 CATGTGGACATTTTCACAGGTGCTTGG
i canFam3.chr31             C 0 I 3
s dasNov3.JH578070            2298461 27 +   3081153 TATTTGGACATTTTGGCACGTTCTTGG
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I

a score=-8467.000000
s hg38.chr21_GL383579v2_alt     54132 7 +    201197 ---GCTT------CTT
s panTro5.chr21               8676529 7 +  33445071 ---GCTT------CTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212045 7 +  46275980 ---GCTT------CTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194558 7 -  13858734 ---GCTT------CTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236805 7 +  32716333 ---GCTT------CTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160621086 4 - 185818997 ---ACTT---------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258060 4 - 192294377 ---ACTT---------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881938 4 -  30496662 ---ACTT---------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405362 4 +  21915920 ---ACTT---------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907030 4 -  90373283 ---ACTT---------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3409890 7 +   7543664 ---ACTTCTT------
i manLeu1.NW_012103476v1    C 0 M 616
s colAng1.NW_012120598v1      5190284 7 -  13750039 ---ACTT---CTT---
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26467705 7 +  50472720 ---GCTT------CTT
i calJac3.chr21             I 350 C 0
s saiBol1.JH378168            8659922 7 +  13128814 ---GCTT------CTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13887072 7 -  14377064 ---GCTT------CTT
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24830890 4 -  38779656 ---CCTT---------
i otoGar3.GL873528          I 3 C 0
s canFam3.chr31              18007424 4 +  39895921 ---CCTT---------
i canFam3.chr31             I 3 C 0
s dasNov3.JH578070            2298488 7 +   3081153 ATTCCTT---------
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I

a score=615249.000000
s hg38.chr21_GL383579v2_alt     54139 71 +    201197 CTTGACAAGGAACCCTTTCTCATTTCCCATGCATCCATATA-TTCCTGTGTTCTGTAATCAGCTTGTTGACA
s panTro5.chr21               8676536 71 +  33445071 CTTGACAAGGAACCCCTTCTCATTTCCCATGCATCCATATA-TTCCTGTGTTCTGTAATCAGCTTGTTGACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212052 71 +  46275980 CTTGACAAGGAACCCCTTCTCATTTCCCATGCATCCATATA-TTCCTGTGTTCTGTAATCAGCTTGTTGACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194565 70 -  13858734 CTTGACAAGGAACCCTTTCTCATTTCCCA-GCATCCATATA-TTCCTGTGTTCTGTAATCAGCTTGTTGACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236812 71 +  32716333 CTTGCCAAGGAACCCTTTCTCATTTCCCATGCATCCATATA-TTCCTGTGTTCTGTAATCAGCTTGTTGACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160621090 71 - 185818997 CTTGCCAAGGAACCCTTTCTCATTTCCCATGCATCCATATA-TCCCTGTGTTCTGTAATCAGGTTGTTGACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258064 71 - 192294377 CTTGCCAAGGAACCCTTTCTCATTTCCCATGCATCCATATA-TCCCTGTGTTCTGTAATCAGGTTGTTGACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4881942 71 -  30496662 CTTGCCAAGGAACCCTTTCTCATTTCCCATGCATCCATATA-TCCCTGTGTTCTGTAATCAGGTTGTTGACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405366 71 +  21915920 CTTGCCAAGGGACCCTTTCTCATTTCCCATGCATCCATATA-TCCCTGTGTTCTGTAATCAGGTTGTTGACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907034 71 -  90373283 CTTGCCAAGGAACCCTTTCTCATTTCCCATGCATCCATACA-TCCCTGTGTTCTGTAATCAGGTTGTTGACA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5190291 68 -  13750039 ---GCCAAGGAACCCTTTCTCATTTCCCATGCATCCATATA-TCCCTGTGTTCTGTAATCAGGTTGTTGACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26467712 53 +  50472720 GTTGCCAAGGAAGCCTTTCTCAT-------------------TCCCTGTGTTCTGTAATCAGCGTGTTGACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8659929 71 +  13128814 TTTGCTGAGGAAGCCTTTCTCATTTCCCATGCATCCTTATA-TCCCTGTGTTCTGTAATCAGCTTGTTAACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13887079 71 -  14377064 GTTGCCAAGGAAACCTTTCTCATTTCCCATGCATTCTTATA-ACCCTGTGTTCTGTAATCAGCTCGTTGACA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24830894 71 -  38779656 CTGGCCAAAGAACCCCTTCTCATCTCCCATGCATCCATATA-TCATCATGTTCTCTAATCAGCTTCTTGGCA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18007428 71 +  39895921 CCTGCTAAGGAACCCCTG-TCATCTCCCACGTATCAGTTCACCCCCCACATTCAGTAATTAACTTACTGAAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2298495 54 +   3081153 ------------------TTTGCCTTCCTAGTATCCAAATACCTCCAGTATTCTGTAATCAGTTCATTGGCA
i dasNov3.JH578070          C 0 I 13937
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e manLeu1.NW_012103476v1      3409897 616 +   7543664 M

a score=1578309.000000
s hg38.chr21_GL383579v2_alt     54210 190 +    201197 CAAGACTAGTGCTTCATTTCAAACTTTCATTACCTTAGCTTTATTGTCTTTGAAGCTGCCTAATAGCCATTTGTTTTTAAAACCTACGCTAACTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATTTCTGGGTTATGATTAATAGTCAGTATAATTCAAC
s panTro5.chr21               8676607 190 +  33445071 CAAGACTAGTGCTTCATTTCAAACTTTCATTACCTTAGCTTTATTGTCTTTGAAGCTGCCTAATAGCCATTTGTTTTTAAAACCTAAGCTAACTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATTTCTGGGTTATGATTAATAGTCAGTATAATTCAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212123 190 +  46275980 CAAGACTAGTGCTTCATTTCAAACTTTCATTACCTTAGCTTTATTGTCTTTGAAGCTGCCTAATAGCCATTTGTTTTTAAAACCTAAGCTAACTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATTTCTGGGTTATGATTAATAGTCAGTATAATTCAAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194635 189 -  13858734 CAAGACTAGTGCTTCATTTCAGACTTTCATTACCTTAGCTTTATTGTCTTTGAAGCTGCCTAATAGCCATTTGTTTTT-AAACCTAAGCTAACTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATTTCTGGGTTATGATTAATAGTCAGTATAATTCAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9236883 191 +  32716333 CAAGACTAGTGCTTCATTTCGAACTTTCATTACCTTAGCTTTATTGTCTTTGAAGCTGCCTAATAGCCATTTGTTTTTAAAACCTAAG----CTAACACAG----AATAAAAATAAAATACCTCATTCTTTTAGGTTATTGCACCCAAA-AACTTTGATTATAATTTCTGGATTATGATTAATAGTCAGTATAATtccac
i nomLeu3.chr25             C 0 I 8605
s rheMac8.chr3              160621161 186 - 185818997 CAAGACTAGTGCTTCATTTCAAACTTGCATTACATTAGCTTTATTGTCTTTGAAGCTGCCTAACAGCCATTTGTTTTTAAAATCTAAG----CTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGCTTATAATGCCTGGGTTATGATTATTAGTCAGTGTAATTCAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258135 186 - 192294377 CAAGACTAGTGCTTCATTTCAAACTTGCATTACATTAGCTTTATTGTCTTTGAAGCTGCCTAACAGCCATTTGTTTTTAAAATCTAAG----CTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATGCCTGGGTTATGATTATTAGTCAGTGTAATTCAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882013 186 -  30496662 CAAGACTAGTGCTTCATTTCAAACTTGCATTACATTAGCTTTATTGTCTTTGAAGCTGCCTAACAGCCATTTGTTTTTAAAATCTAAG----CTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATGCCTGGGTTATGATTATTAGTCAGTGTAATTCAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405437 186 +  21915920 CAAGACTAGTGCTTCATTTCAAACTTGCATTACATTAGCTTTATTGTCTTTGAAGCTGCCTAACAGCCATTTGTTTTTAAAATCTAAG----CTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATGCCTGGGTTATGATTATTAGTCAGTATAATTCAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907105 186 -  90373283 CAAGACTAGTGCTTCATTTCAAACTTGCATTACATTAGCTTTATTGTCTTTGAAGCTGCCTAACAGCCATTTGTTTTTAAAATCTAAG----CTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATGCCTGGGTTATGATTATTAGTCAGTATAATTCAAC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5190359 186 -  13750039 CAAGACTAGTGCTTCATTTCAAACTTTCATTACATTAGCTTTATTGTCTTTGAAGCTGCCTAATAGCCATTTGTCTTTAAAATCTAAG----CTAACACAG----AATA-----AAAATATCTCATTCTTTTAGGTTACTGCACCCAAA-AACTTTGATTATAATGCCTGGGTTATGATTATTAGTCAGTATAATTCAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26467765 186 +  50472720 CAAGACTAGTGCTTCTTCCCAAACTTTCATAACATTAG----GTTGTCTCTGAAACTGCCTAATAGCCATTTGTTTTTAAAACCTATG----CTAACACAGAAAAAAAA-----AAAAAAACTCATTCTTTTAGGTTACTGCACCCAAA-ATCTTTGATTACAACACCTGGATTGTGATTAATAGTGAATATAATTCAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8660000 183 +  13128814 CAAGACTAGTGCTTCCTTCCAAACTTTAATTACATTAG----GTTGTCTTTGAAATTGCCTAATAGCCATTTGTTTTTAAAACCTATG----CTAACACAG---AAAAA-----AAGAAATCTCATTCCTTTAGGTTACTGCACCCAAA-ATCTTTGATTACAATGCCTGGATTATGATTAATAGTCAATATAACTCGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13887150 181 -  14377064 CAAGTCTAGTGCTTCGTTCCAAACTTTCATTACATTAG----GTTGTCTTTGAAACTGCCTAATAGCCATTTGTTTTTAAAACCTATG----CTAACACAG-----AAA-----AAAAAATCTCATTCTTTTAGGTTACTGCACCCAAA-ATCTTTGATTACAATGCCTGGATTATGATTAATAGTCAATATAATTAAAC
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24830965 176 -  38779656 CAAGATTA-----TCATTTTGAACTTTTATTATATTAGGTTAATTGTCTTTGAAGCT--------GCCATTTGGTTTTCAAACCTAAG----GTAAAACAG----AATAGA---AAAATATGTCTTTCTTTTAGGTTGTTACCCCTGAACATTTTTTATTATAATGCCTAGATTATGATTAACAAGCATTGTAATTCTAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18007499 183 +  39895921 CAAGAGCAGTGTTTTGTTTTGAACTCTCATTACAGTAGGTTAATTGTCCTTTATGCTA-CTAATAACTATTTATTTTTAAAACCTAAG----CTAA-ATGG----AATA-----AAAATATCTCTTCCTTTTTGGTTGTCACACCTGAA-AAA-TGGATTATAATGCCTGAATTATAATTAATAAGCAGTATAATTCAAC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e manLeu1.NW_012103476v1      3409897 616 +   7543664 M

a score=302624.000000
s hg38.chr21_GL383579v2_alt     54400 47 +    201197 TGGATTTAATAACCAGAAATATCTAAGAAGCAAATACC---TTTTTTTTT
s panTro5.chr21               8676797 47 +  33445071 TGGATTTAATAACCAGAAATATCTAAGAAGCAACTACC---TTTTTTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212313 43 +  46275980 TGGATTTAATAACCAGAAATATCTAAGAAGCAACTACC-------TTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194824 45 -  13858734 TGGATTTAATAACCAGAAATATCTAAGAAGCAAATACT-----TTTTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160621347 43 - 185818997 TGGATTTAATAACCAGAAATATCTAGGAAGCAAATGCC-------TTTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258321 43 - 192294377 TGGATTTAATAACCAGAAATATCTAGGAAGCAAATGCC-------TTTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882199 42 -  30496662 TGGATTTAATAACCAGAAATATCTAGGAAGCAAATGCC--------TTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405623 43 +  21915920 TGGATTTAATAACCAGAAATATCTAGGAAGCAAATGCC-------TTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907291 50 -  90373283 TGGATTTAATAACCAGAAATATCTAGGAAGCAAATGCCtttttttttttt
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5190545 48 -  13750039 TGGATTTAATAACCAGAAATATCTAGGAAGCAAATACC--TTTTTTTTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26467951 50 +  50472720 TGGATTTAATAACCGGAAATATCTAGGAAGCAAATGTCATTTTTTTTCTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8660183 50 +  13128814 TGGATTTAATAACTGGAAATACCTAGGAAGCAAATGTCCttttttttttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13887331 50 -  14377064 TGGATTTAATAACCGGAAATATCTAGGAAACAAATGTCGTtttatttatt
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24831141 47 -  38779656 TGGATTCAATAGCCAGAAAGATCTAGGGGGGAAATGTC---ATGTTTTTT
i otoGar3.GL873528          C 0 I 1249
s canFam3.chr31              18007682 41 +  39895921 TTGATTCAATGACCAAAAATATCTAGGCAGAAAATATCAAT---------
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e manLeu1.NW_012103476v1      3409897 616 +   7543664 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=663369.000000
s hg38.chr21_GL383579v2_alt     54447  91 +    201197 TTTTTG---------------CTTGCTGTAAGGCCTGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
s panTro5.chr21               8676844  91 +  33445071 TTTTTG---------------CTTGCTGTAAGGCCTGATA------------AGATAGCATTGCAGCACATATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212356  91 +  46275980 TTTTTG---------------CTTGCTGTAAGGCCTGATA------------AGATAGCATTGCAGCACATATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194869  91 -  13858734 TTTTTG---------------CTTGCTGTAAGGCCTGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160621390  91 - 185818997 TTTTTC---------------CTTGCTGTAAGACCTGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258364  91 - 192294377 TTTTTC---------------CTTGCTGTAAGACCTGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882241  91 -  30496662 TTTTTC---------------CTTGCTGTAAGACCTGATA------------AGATAGTATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405666  91 +  21915920 TTTTTC---------------CTTGCTGTAAGACCTGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907341  91 -  90373283 tttttG---------------CTTGCTGTAAGACCTGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5190593  91 -  13750039 TTTTTG---------------CTTGCTGTAAGACCAGATA------------AGATAGCATTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26468001  91 +  50472720 TTTTTG---------------CTTGCTGTAAGGCCTTATA------------AGACAGCACTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTAATCA
i calJac3.chr21             C 0 I 2535
s saiBol1.JH378168            8660233 100 +  13128814 tttttttt------ttttttCCTTGCTGGAAGGCCTGATA------------AGATAGCACTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATACAAAACTTTATCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13887381 106 -  14377064 tatttatttatttatttattGCTTGCTGTAAGGCCTGATA------------AGATAGCACTGCAGCACAAATCAGTATGAATATTCTGAAGCTGTTTATATATAAAAAACTTAATCA
i cebCap1.NW_016107322v1    C 0 I 2258
s canFam3.chr31              18007723 103 +  39895921 TTTTGA---------------CTTGCTGTGACATCTCAAATCTATAAAAAGTAGATAGAATTGCAGCACAAATCAGTATGAATATTTTGAGGCTGTTCATATACCAAAAACTAAATTA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e manLeu1.NW_012103476v1      3409897 616 +   7543664 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=11264.000000
s hg38.chr21_GL383579v2_alt     54538 2 +    201197 AC
s panTro5.chr21               8676935 2 +  33445071 AC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212447 2 +  46275980 AC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194960 2 -  13858734 AC
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160621481 2 - 185818997 AC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258455 2 - 192294377 AC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882332 2 -  30496662 AC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405757 2 +  21915920 AC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907432 2 -  90373283 AC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5190684 2 -  13750039 AC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8660333 2 +  13128814 GC
i saiBol1.JH378168          C 0 I 2248
s canFam3.chr31              18007826 2 +  39895921 AC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e manLeu1.NW_012103476v1      3409897 616 +   7543664 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=1276450.000000
s hg38.chr21_GL383579v2_alt     54540 303 +    201197 --------------------TGTTTAT-TGTGTGTGAGAAGTTTATA--ACATTTTGTCTGCAAGATTCTTCGGGGCAGGCATAATATCAATTTTTATAATTGTGAAATGT-ACAAAGCCTGCCACAAGGTAGTACAAATAAAGTTTTCAAAACCTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGACGTTCGCTTTGAGCTGAGTTCAGATAATTATCAATGATGAGCCAAATACAGTGCATTATAGGCTATGGATTTATTTTTTCAACATA-ACAAGACAATTGGGGGTAGAATAATGGATCCCAGTTAG
s panTro5.chr21               8676937 303 +  33445071 --------------------TGTTTAT-TGTGTGTGAGAAGTTTATA--ACATTTTGTCTGCAAGATTCTTCGGGGCAGGCATAATATCAATTTTTATAATTGTGAAATGT-ACAAAGCCTGCCACAAGGTAGTACAAATAAAGTTTTCAAAACCTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGACGTTCGCTTTGAGCTGAGTTCAGATAATTATCAATGATGAGCCAAATACAGTGCATTATAGGCtatggatttattttttcaacata-acaagacaattgggggtagaataatggatcccagttag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212449 303 +  46275980 --------------------TGTTTAT-TGTGTGTGAGAAGTTTATA--ACATTTTGTCTGCAAGATTCTTCGGGGCAGGCATAATATCAATTTTTATAATTGTGAAATGT-ACAAAGCCTGCCACAAGGTAGTACAAATAAAGTTTTCAAAACCTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGACGTTCGCTTTGAGCTGAGTTCAGATAATTATCAATGATGAGCCAAATACAGTGCATTATAGGCtatggatttattttttcaacata-acaagacaattgggggtagaataatggatcccagttag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8194962 303 -  13858734 --------------------TGTTTAT-TGTGTGTGAGAAGTTTATA--ACATTTTGTCTGCAAGATTCTTCGGGGCAGGCATAATATCAATTTTTATAATTGTGAAATGT-ACAAAGCCTGCCACAAGGTAGTACAAATAAAGTTTTCAAAACCTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGACGTTCGCTTTGAGCTGAGTTCAGATAATTATCAATGATGAGCCAAATACAGTGCATTATAGGCTATGGATTTATTTTTTCAACATA-ACAAGACAATTGGGGGTAGAATAATGGATCCCAGTTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160621483 304 - 185818997 --------------------TGCTTAT-TGTGTGTGAGCAGTTTATAATATATTTTGTCTGCAAGTTTATTCGGGGCAGGCATAATATCAATTTTTATAACTGTGAAATCT-ACAAAGCTTGCCACAAGGTAGTAAAAATAAAGTTTTCAAAACTTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGATGTTCGCTTTGAGCAGAGTTCAGATAATTATCAACGGTGAG-CAAATACAGTGCATTATAGGCTATGGATTTATTTGTTCAACATA-ACAAGACCAGTGGGGGTAGAATAATGGATTCCAGTTAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167258457 304 - 192294377 --------------------TGCTTAT-TGTGTGTGAGCAGTTTATAATATATTTTGTCTGCAAGTTTATTCGGGGCAGGCATAATATCAATTTTTATAACTGTGAAATCT-ACAAAGCTTGCCACAAGGTAGTAAAAATAAAGTTTTCAAAACTTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGATGTTCGCTTTGAGCAGAGTTCAGATAATTATCAACGGTGAG-CAAATACTGTGCATTATAGGCTATGGATTTATTTGTTCAACATA-ACAAGACCAGTGGGGGTAGAATAATGGATTCCAGTTAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882334 304 -  30496662 --------------------TGCTTAT-TGTGTGTGAGCAGTTTATAATATATTTTGTCTGCAAGTTTATTCGGGGCAGGCATAATATCAATTTTTATAACTGTGAAATCT-ACAAAGCTTGCCACAAGGTAGTAAAAATAAAGTTTTCAAAACTTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGATGTTCGCTTTGAGCAGAGTTCAGATAATTATCAACGGTGAG-CAAATACAGTGCATTATAGCCTATGGATTTATTTGTTCAACATA-ACAAGACCAGTGGGGGTAGAATAATGGATTCCAGTTAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13405759 304 +  21915920 --------------------TGCTTAT-TGTGTGTGAGCAGTTTATAATATATTTTGTCTGCAAGTTTATTCGGGGCAGGCATAATATCAATTTTTATAACTGTGAAATCT-ACAAAGCTTGCCACAAGGTAGTAAAAATAAAGTTTTCAAAACTTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGATGTTCGCTTTGAGCAGAGTTCAGATAATTATCAACGGTGAG-CAAATACAGTGCATTATAGGTTATGGATTTATTTTTTCAACATA-ACAAGACCAGTGGGGGTAGAATAATGGATTCCAGTTAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907434 304 -  90373283 --------------------TGCTTAT-TGTGTGTGAGCAGTTTATAATATATTTTGTCTGCAAGTTTATTCGGGTCAGGCATAATATCAATTTTTATAATTGTGAAATCT-ACAAAGCCTGCCACAAGGTAGTAAAAATAAAGTTTTCAAAACTTAAGTTGCTACCAGTATTAATTTTAATAAGTTCATACCAATGAATTGATGTTCACTTTGAGCAGAGTTCAGATAATTATCAACGGTGAG-CAAATACAGTGCATTATAGGCTATGGATTTATTTGTTCAACATA-ACAAGACAAGTGGGGGTAGAATAATGGATTCCAGTTAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5190686 304 -  13750039 --------------------TGCTTAT-TGTGTGTGAGCAGTTTATAATATATTTTGTCTGCAAGTTTATTCGGGGCAGGCATAATATCAACTTTTATAATTGTGAAATCT-ACAAAGCCTGCCACAAGGTAGTAAAAATAAAGTTTTCAAAACTTAAGTTGCTACCAGTATTAGTTTTAATAAGTTCATACCAATGAATTGATGTTCGCTTTGAGCAGAGTTCAGATAATTATCAACGGTGAG-CAAATACAGTGCATTATAGGCTATGGATTTATTTTTTCAACATA-ACAAGACAAGTGGGGGTAGAATAATGGATTCCAGTTAG
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18007828 318 +  39895921 TCTTCATTtgtatgtaagtgtgtgtgtgtgtgtgtgtgtgCGCTATATCAT-TTTTGTCTGCAAGATTCAGCATGGAAGTTATAATATCAA-TTTTACAATTGTAAATTCCAATAGAGCTCATCACAAGGTAGTATA---AAAGTTTTTAAAACCTAAATTGTTATCAGCTTTGG-TTTAATCAATCCTCACCAATAGGTTGATATTCA----GTGTAGAATCCAGCAAAATATGGCCAGTGAACCAAATCCAGAAAATCACTGACTATGGATTTATTTTTCCAAGGtacaaaagactagagggaatataataatggatcccagttag
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e manLeu1.NW_012103476v1      3409897 616 +   7543664 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=595241.000000
s hg38.chr21_GL383579v2_alt     54843 118 +    201197 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTATCCATCCTCATTTTGAAGC-----------------AGATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaaaattt
s panTro5.chr21               8677240 118 +  33445071 tcatcat-tggcttcagtgcttgttgacatattaccaatctgattttatctatccatcctcaTTTTGAAGC-----------------AGATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaaaattt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212752 118 +  46275980 tcatcat-tggcttcagtgcttgttgacatattaccaatctgattttatctatccatcctcaTTTTGAAGC-----------------AGATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaaaattt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8195265 119 -  13858734 TCAACAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTATCCATCCTCATTTTGAAGC-----------------AGATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGATTTTTTCtccatgtccaaaattt
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160621787 118 - 185818997 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCCATCCCCGTTTTGAAGC-----------------AAATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaacattt
i rheMac8.chr3              C 0 I 13
s macFas5.chr3              167258761 118 - 192294377 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCTATCCCCGTTTTGAAGC-----------------AAATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaacattt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882638 118 -  30496662 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCCATCCCCGTTTTGAAGC-----------------AAATTCTCT-----------------------ATTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaacattt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13406063 118 +  21915920 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCCATCCCCGTTTTGAAGC-----------------AAATTCTCT-----------------------GTTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaacattt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907738 117 -  90373283 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCCATCCCCGTTTTGAAGC-----------------AAATTCTCT-----------------------GTTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaaca-tt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3410524 118 +   7543664 TCATCAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCCATCCCCGTTTTGAAGC-----------------AAATTCTCT-----------------------GTTATTA--------------------------------------CTT--TATATGA-TTTTTCtccatgtccaacattt
i manLeu1.NW_012103476v1    M 616 C 0
s colAng1.NW_012120598v1      5190990 118 -  13750039 TCATTAT-TGGCTTCAGTGCTTGTTGACATATTACCAATCTGATTTTATCTGTCCATCCCCATTTTGAAGC-----------------AAATTCTCT-----------------------GTTATTA--------------------------------------CTT--TATACGA-TTTTTCtccatgtccaacattt
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18008146 199 +  39895921 ccaccatctggctacagaagttgtaaacatatcactaatctggttttatctattcatttctatttcaaagcattattatattacctgtaaattccttagtgaataactctaaaagataggattattatcaacataaaacacatgtagcaaaatccagactaagtccttaatatataa-ttattttacatgttcaaatttt
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=35530.000000
s hg38.chr21_GL383579v2_alt     54961 7 +    201197 tctaatt
s panTro5.chr21               8677358 7 +  33445071 tctaatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22212870 7 +  46275980 tctaatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8195384 7 -  13858734 tctaatt
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167258879 7 - 192294377 tctaatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4882756 7 -  30496662 tctaatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13406181 7 +  21915920 tctaatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19907855 7 -  90373283 tctaatt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3410642 7 +   7543664 tctaatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5191108 7 -  13750039 tctaatt
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18008345 7 +  39895921 tctaatt
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e rheMac8.chr3              160621905 13 - 185818997 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=2779476.000000
s hg38.chr21_GL383579v2_alt     54968 575 +    201197  
s panTro5.chr21               8677365 575 +  33445071  
i panTro5.chr21             C 0 I 12
s panPan2.chr21              22212877 575 +  46275980  
i panPan2.chr21             C 0 I 12
s gorGor5.CYUI01015003v1      8195391 575 -  13858734  
i gorGor5.CYUI01015003v1    C 0 I 12
s rheMac8.chr3              160621918 576 - 185818997  
i rheMac8.chr3              I 13 I 12
s macFas5.chr3              167258886 576 - 192294377  
i macFas5.chr3              C 0 I 12
s macNem1.NW_012015021v1      4882763 576 -  30496662  
i macNem1.NW_012015021v1    C 0 I 12
s cerAty1.NW_012002954v1     13406188 576 +  21915920  
i cerAty1.NW_012002954v1    C 0 I 12
s chlSab2.chr2               19907862 610 -  90373283  
i chlSab2.chr2              C 0 I 12
s manLeu1.NW_012103476v1      3410649 576 +   7543664  
i manLeu1.NW_012103476v1    C 0 I 12
s colAng1.NW_012120598v1      5191115 555 -  13750039  
i colAng1.NW_012120598v1    C 0 I 12
s canFam3.chr31              18008352 578 +  39895921  
i canFam3.chr31             C 0 I 204
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=1935569.000000
s hg38.chr21_GL383579v2_alt     55543 369 +    201197 ataaggaaggtagaataaa----ttattgtttctttctctg----tatgaatag-ccagaataatttactggactcctaagaatccccgaaagtgacaaattagtttttataagtataattaaaatatcttagg-ttttttacatgtatatttgatgcctctcaatccattataggcattaatatttgccgttcaaattCtgtgaggcagatttttttagatggctcgctctgagattcctacatcctgatatacatgtaccatatgatcgcctccccttgggtgtggctgagacctgtaaacac-atggaatagcaaacacaatgtgacaaatggaattttgcagatgtaattaagttccataactagttgactgagtt
s panTro5.chr21               8677952 370 +  33445071 ataaggaaggtagaataaa----ttattgtttctttctctg----tatgaatag-ccagaataatttactggactcttaagaatccccgaaagtgataaattagtttttataagtataattaaaatatcttaggtttttttacatgtatacttgatgcatctcaatccattataggcattaatatttgccgttcaaattCtgtgaggcagatttttttagatggctcgctctgagattcctacatcctgatatacatgtaccatatgatcgcctccccttgggtgtggttgagacctgtaaacac-atggaatagcaaacacaatgtgacaaatggaattttgcagatgtaattaagttccataactagttgactgagtt
i panTro5.chr21             I 12 C 0
s panPan2.chr21              22213464 370 +  46275980 ataaggaaggtagaataaa----ttattgtttctttctctg----tatgaatag-ccagaataatttactggactcttaagaatccccgaaagtgataaattagtttttataagtataattaaaatatcttaggtttttttacatgtatacttgatgcatctcaatccattataggcattaatatttgccgttcaaattCtgtgaggcagatttttttagatggctcgctctgagattcctatatcctgatatacatgtaccatatgatcgcctccccttgggtgtggttgagacctgtaaacac-atggaatagcaaacacaatgtgacaaatggaattttgcagatgtaattaagttccataactagttgactgagtt
i panPan2.chr21             I 12 C 0
s gorGor5.CYUI01015003v1      8195978 370 -  13858734 ataaggaagttagaataaa----ttattgtttctttctctg----tatgaatag-ccagaataatttactggactcctaagaatccccgaaagtgacaaattagtttttataagtataattaaaatatcttaggtttttttacatgtatatttgatgcatctcaatccattataggcattaatatttgctgttcaaattCtgtgaggcagatttttttagatggctcactctgagattcctacatcctgatatacatgtaccatatgatcgcctccccttgggtgtggttgagacctgtaaacac-atggaatagcaaacacaatgtgacaaatggaattttgcagatataattaagttccataactagttgactgagtt
i gorGor5.CYUI01015003v1    I 12 C 0
s rheMac8.chr3              160622506 370 - 185818997 ataaggaaggtagaataaa----ttattgtttctttctttg----tatgaatat-ccagaataatttactggactcctatgaatctccaaaagtgacaaattagtttttataagtataattaaaatagcttagttttctttacatgtatatttgatgcatttcaatccattataggcattaatttttgctgttcaaattctgtgaagcagagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctcctccccttgagtgtggttgggacccgtagacat-atggaatagcaaacataatgtgacaaatggaatttcgcagatgtaattaagttccgtaactagttgactgagtt
i rheMac8.chr3              I 12 C 0
s macFas5.chr3              167259474 370 - 192294377 ataaggaaggtagaataaa----ttattgtttctttctttg----tatgaatat-ccagaataatttactggactcctatgaatctccaaaagtgacaaattagtttttataagtataattaaaatagcttagttttctttacatgtatatttgatgcatttcaatccattataggcattaatttttgctgttcaaattCtgtgaagcagagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctcctccccttgagtgtggttgggacccgtagacat-atggaatagcaaacataatgtgacaaatggaatttcgcagatgtaattaagttccataactagttgactgagtt
i macFas5.chr3              I 12 C 0
s macNem1.NW_012015021v1      4883351 370 -  30496662 ataaggaaggtagaataaa----ttattgtttctttctttg----tatgaatat-ccagaataatttactggactcctatgaatctccaaaagtgacaaattagtttttataagtataattaaaatagcttagttttctttacatgtatatttgatgcatttcaatccattataggcattaatttttgctgttcaaattctgtgaagcagagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctcctccccttgagtgtggttgggacccgtagacat-atggaatagcaaacataatgtgacaaatggaatttcgcagatgtaattaagttccataactagttgactgagtt
i macNem1.NW_012015021v1    I 12 C 0
s cerAty1.NW_012002954v1     13406776 370 +  21915920 ataaggaaggtagaataaa----ttattgtttctttctctg----tatgaatat-ccagaataatttactggactcctatgaatctccaaaagtgacaaattagtttttataagtataattaaaatagcttagttttctttacatgtatatttgatgcatttcaatccattataggcattaatttttgctgttcaaattctgtgaagcagagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctcctccccttgagtgtggttgggacccgtagacat-atggaatagcaaacataatgtgacaaatggaatttcgcagatgtaattaagttccataactagttgactgagtt
i cerAty1.NW_012002954v1    I 12 C 0
s chlSab2.chr2               19908484 370 -  90373283 gtaaggaaggtagaataaa----ttattgtttctttctctg----tatgaatat-ctagaataatttactggactcctacgaatccccaaaagtgacaaattagtttttataagtataattaaaatatcttagttttctttacatgtatatttgatgcatttcaatccattataggtattaatttttgctgttcaaattCtgtgaggcggagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctcctccccttgagtgtggttgagacttgtatagac-atggaatagcaaacacaatgtgacaaatgggatttcgcagatgtaactaagttccataactagttgactgagtt
i chlSab2.chr2              I 12 C 0
s manLeu1.NW_012103476v1      3411237 370 +   7543664 ataaggaaggtagaataaa----ttattgtttctttctctg----tatgaatat-ccagaataatttactggactcctatgaatctccaaaagtgacaaattagtttttataagtataattaaaatagcttagttttctttacatgtatatttgatgcatttcaatccattataggcattaatttttgctgttcaaattCtgtgaagcagagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctcctccccttgagtgtggttgggacccgtagacat-atggaatagcaaacataatgtgacaaatggaatttcgcagatgtaattaagttccataactagttgactgagtt
i manLeu1.NW_012103476v1    I 12 C 0
s colAng1.NW_012120598v1      5191682 370 -  13750039 ataaggaaggtagaataaa----ttattgtttctttctctg----tatgaatat-ccagaataatctactggactcctacaaatccccaaaagtgacaaattagtttttataagtataattaaaatatcttagttttctttacatgtatatttgatgcatctccatccattataggcattaatttttgctgttcaaattCtgtgaggcatagttttttagatggctccctctgagattcctgcatcctgatatacatgtaccatatgatctccccgccttgagtgtggttgggacctgtagacat-atggaatagcaaacacaatgtgacaaatggaatttcgcagatgtaattaagttccataactagttgactgagtt
i colAng1.NW_012120598v1    I 12 C 0
s canFam3.chr31              18009134 370 +  39895921 ataagaaaaattgaataaacacctgatcgtttctttctctgtgtttatcactatcccaaagaaactctctgtacccctaagactctccaaagatgacaaattagttttttaaagtataatta----tgctctgtctctttggtatgagtatttgatgtgcgtcaatccattatagatgttaattcttgctgctcaaattCtggcaggcag-gtttcttaaatgg----atataagatccctataccttgatacacatgccctgtataatctcctgtttttgagtgttggtaagacctataaatatgatgcaatatcgagcactatatagtaaatggaattttgcacgtgtgatgaag-tccataacaggttgactgagtt
i canFam3.chr31             I 204 I 3308
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=23828.000000
s hg38.chr21_GL383579v2_alt     55912 5 +    201197 caatc
s panTro5.chr21               8678322 5 +  33445071 caatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22213834 5 +  46275980 caatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8196348 5 -  13858734 caatc
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160622876 5 - 185818997 cagtc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167259844 5 - 192294377 caatc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4883721 5 -  30496662 caatc
i macNem1.NW_012015021v1    C 0 I 2047
s cerAty1.NW_012002954v1     13407146 5 +  21915920 caatc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19908854 5 -  90373283 caatc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3411607 5 +   7543664 caatc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5192052 5 -  13750039 cagtc
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=4500.000000
s hg38.chr21_GL383579v2_alt     55917 1 +    201197 C
s panTro5.chr21               8678327 1 +  33445071 C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22213839 1 +  46275980 C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8196353 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160622881 1 - 185818997 c
i rheMac8.chr3              C 0 I 2040
s macFas5.chr3              167259849 1 - 192294377 c
i macFas5.chr3              C 0 C 0
s cerAty1.NW_012002954v1     13407151 1 +  21915920 c
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19908859 1 -  90373283 c
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3411612 1 +   7543664 c
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5192057 1 -  13750039 c
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e macNem1.NW_012015021v1      4883726 2047 -  30496662 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=2300.000000
s hg38.chr21_GL383579v2_alt     55918 1 +    201197 T
s panTro5.chr21               8678328 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22213840 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8196354 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167259850 1 - 192294377 c
i macFas5.chr3              C 0 C 0
s cerAty1.NW_012002954v1     13407152 1 +  21915920 t
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19908860 1 -  90373283 t
i chlSab2.chr2              C 0 I 2043
s manLeu1.NW_012103476v1      3411613 1 +   7543664 t
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5192058 1 -  13750039 t
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e macNem1.NW_012015021v1      4883726 2047 -  30496662 I
e rheMac8.chr3              160622882 2040 - 185818997 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=5096.000000
s hg38.chr21_GL383579v2_alt     55919 2 +    201197 AA
s panTro5.chr21               8678329 2 +  33445071 AA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22213841 2 +  46275980 AA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8196355 2 -  13858734 AA
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167259851 2 - 192294377 aa
i macFas5.chr3              C 0 I 2041
s cerAty1.NW_012002954v1     13407153 2 +  21915920 aa
i cerAty1.NW_012002954v1    C 0 I 2048
s manLeu1.NW_012103476v1      3411614 2 +   7543664 aa
i manLeu1.NW_012103476v1    C 0 I 2073
s colAng1.NW_012120598v1      5192059 2 -  13750039 aa
i colAng1.NW_012120598v1    C 0 I 2637
e dasNov3.JH578070            2298549 13937 +   3081153 I
e macNem1.NW_012015021v1      4883726 2047 -  30496662 I
e rheMac8.chr3              160622882 2040 - 185818997 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e chlSab2.chr2               19908861 2043 -  90373283 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=16374.000000
s hg38.chr21_GL383579v2_alt     55921 29 +    201197 ACAAGTTTAGCAAGTTAGCAAACAATCCT
s panTro5.chr21               8678331 29 +  33445071 ACAAGTTTAGCAAGTTAGCAAACAATCCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22213843 29 +  46275980 ACAAGTTTAGCAAGTTAGCAAACAATCCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8196357 29 -  13858734 ACAAGTTTAGCAAGTTAGCAAACAATCCT
i gorGor5.CYUI01015003v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cerAty1.NW_012002954v1     13407155 2048 +  21915920 I
e macNem1.NW_012015021v1      4883726 2047 -  30496662 I
e macFas5.chr3              167259853 2041 - 192294377 I
e rheMac8.chr3              160622882 2040 - 185818997 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e colAng1.NW_012120598v1      5192061 2637 -  13750039 I
e manLeu1.NW_012103476v1      3411616 2073 +   7543664 I
e chlSab2.chr2               19908861 2043 -  90373283 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=4513366.000000
s hg38.chr21_GL383579v2_alt     55950 1167 +    201197  
s panTro5.chr21               8678360 1164 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22213872 1164 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8196386 1168 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160624922 1168 - 185818997  
i rheMac8.chr3              I 2040 C 0
s macFas5.chr3              167261894 1169 - 192294377  
i macFas5.chr3              I 2041 C 0
s macNem1.NW_012015021v1      4885773 1168 -  30496662  
i macNem1.NW_012015021v1    I 2047 C 0
s cerAty1.NW_012002954v1     13409203 1168 +  21915920  
i cerAty1.NW_012002954v1    I 2048 C 0
s chlSab2.chr2               19910904 1161 -  90373283  
i chlSab2.chr2              I 2043 C 0
s manLeu1.NW_012103476v1      3413689 1169 +   7543664  
i manLeu1.NW_012103476v1    I 2073 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086  148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e colAng1.NW_012120598v1      5192061 2637 -  13750039 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=7804505.000000
s hg38.chr21_GL383579v2_alt     57117 1666 +    201197  
s panTro5.chr21               8679524 1667 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22215036 1667 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8197554 1662 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160626090 1669 - 185818997  
i rheMac8.chr3              C 0 I 312
s macFas5.chr3              167263063 1669 - 192294377  
i macFas5.chr3              C 0 I 312
s macNem1.NW_012015021v1      4886941 1669 -  30496662  
i macNem1.NW_012015021v1    C 0 I 320
s cerAty1.NW_012002954v1     13410371 1674 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19912065 1664 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3414858 1668 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5194698 1662 -  13750039  
i colAng1.NW_012120598v1    I 2637 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086  148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=5724637.000000
s hg38.chr21_GL383579v2_alt     58783 1239 +    201197  
s panTro5.chr21               8681191 1246 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22216703 1245 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8199216 1242 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160628071 1252 - 185818997  
i rheMac8.chr3              I 312 C 0
s macFas5.chr3              167265044 1257 - 192294377  
i macFas5.chr3              I 312 C 0
s macNem1.NW_012015021v1      4888930 1256 -  30496662  
i macNem1.NW_012015021v1    I 320 C 0
s cerAty1.NW_012002954v1     13412045 1256 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19913729 1224 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3416526 1257 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5196360 1243 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086  148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24831188 1249 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=3455356.000000
s hg38.chr21_GL383579v2_alt     60022 693 +    201197  
s panTro5.chr21               8682437 690 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22217948 691 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8200458 688 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160629323 699 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167266301 698 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4890186 692 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13413301 696 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19914953 702 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3417783 697 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5197603 703 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24832437 706 -  38779656  
i otoGar3.GL873528          I 1249 I 770
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=89930.000000
s hg38.chr21_GL383579v2_alt     60715 18 +    201197 AATCCTACTTAGTTTTTA
s panTro5.chr21               8683127 18 +  33445071 AATCCTACTTAGTTTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22218639 18 +  46275980 AATCCTACTTAGTTTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8201146 18 -  13858734 AATCCTACTTAGTTTTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160630022 18 - 185818997 AATCCTACTTAGTTTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167266999 18 - 192294377 aatcctacttagttttta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4890878 18 -  30496662 AATCCTACTTAGTTTTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13413997 18 +  21915920 AATCCTACTTAGTTTTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19915655 18 -  90373283 ATTCCTACTTAGTTTTTA
i chlSab2.chr2              C 0 I 143
s manLeu1.NW_012103476v1      3418480 18 +   7543664 AATCCTACTTAGTTTTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5198306 18 -  13750039 aatcctacttagttttta
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24833143 770 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=15083221.000000
s hg38.chr21_GL383579v2_alt     60733 3251 +    201197  
s panTro5.chr21               8683145 3247 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22218657 3253 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8201164 3251 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160630040 3236 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167267017 3233 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4890896 3232 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13414015 3231 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19915816 3255 -  90373283  
i chlSab2.chr2              I 143 C 0
s manLeu1.NW_012103476v1      3418498 3242 +   7543664  
i manLeu1.NW_012103476v1    C 0 M 525
s colAng1.NW_012120598v1      5198324 3236 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086  148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24833143  770 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=1789669.000000
s hg38.chr21_GL383579v2_alt     63984 454 +    201197 gatacagctaaagcagtcttaagaggagagtttgtagcactaaatacctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaactagaaaaacaagatcaaactaatcctaaagctagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaattgtaccctaaacaccatataaagttcaataaaattaaaagtaggttctttgaaaggataaacatggtagatggactgcgagctagattaacatagaaaaaa-gagatgatccaaataagcacaatcagaaatcacaaaggagacattacaactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacac--------aaatctgtagaaaatggagaaattcttgaaagcatacaatcacccaagattgagtcagaaag
s panTro5.chr21               8686392 455 +  33445071 gatacagctaaagcagtcttaagaggagagtttgtagcactaaatacctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaactagaaaaacaagatcaaactaatcctaaagctagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaattgcaccctaaacaccatataaagttcaataaaattaaaagttggttctttgaaaggataaacatggtagatggactgcgagctagattaacatagaaaaaaggagatgatccaaataagcacaatcagaaatcacaaaggagacattacaactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacac--------aaatctgtagaaaatggagaaattcttgaaagcatacaatcacccaagattgagtcagaaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22221910 455 +  46275980 gatacagctaaagcagtcttaagaggagagtttgtagcactaaatacctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaactagaaaaacaagatcaaactaatcctaaagctagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaattgcaccctaaacaccatataaagttcaataaaattaaaagttggttctttgaaaggataaacatggtagatggactgcgagctagattaacatagaaaaaaggagatgatccaaataagcacaatcagaaatcaaaaaggagacattacaactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacac--------aaatctgtagaaaatggagaaattcttgaaagcatacaatcacccaagattgagtcagaaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8204415 454 -  13858734 gatacagctaaagcagtcttaagaggagagtttgtagcactaaatacctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaactagaaaaacaagatcaaactaatcctaaagctagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaattgcaccctaaacaccatataaagttcaataaaattaaaagttggttctttgaaaggataaacatggtagatggactgcgagctagattcacatagaaaaaa-gagatgatccaaataagcacaatcagaaatcacaaaggagacattacaactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacac--------aaatctgtagaaaatggagaaattcttgaaagcatacaatcacccaagattgagtcagaaag
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160633276 462 - 185818997 gatacagctaaagcagtcttaagagaagagtttgtagcactaaatgcctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaagtagaaaaacaagatcaaacaaatcctaaaactagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaaatgcaccttaagcaccatataaaggtcaataaaacgaaaacttggttctttgaaaggataaacatggtagacggactgtgagctagattaacatagaaaaaa-gagatgatccaaataagtatcatcagaaatgacaaaggagacattactactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacacaaaccagaaaatctgtagaaaatggataaattcttgaaagcacacaatcacccaagattgagtcagcaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167270250 462 - 192294377 gatacagctaaagcagtcttaagagaagagtttgtagcactaaatgcctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaagtagaaaaacaagatcaaacaaatcctaaaactagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaaatgcaccttaagcaccatataaaggtcaataaaacgaaaacttggttctttgaaaggataaacatggtagacggactgtgagctagattaacatagaaaaaa-gagatgatccaaataagtatcatcagaaatgacaaaggagacattactactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacacaaaccagaaaatctgtagaaaatggataaattcttgaaagcacacaatcacccaagattgagtcagcaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4894128 462 -  30496662 gatacagctaaagcagtcttaagagaagagtttgtagcactaaatgcctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaagtagaaaaacaagatcaaacaaatcctaaaactagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaaatgcaccttaagcaccatataaaggtcaataaaacgaaaacttggttctttgaaaggataaacatggtagacggactgtgagctagattaacatagaaaaaa-gagatgatccaaataagcatcatcagaaatgacaaaggagacattactactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctatgtgcacacaaaccagaaaatctgtagaaaatggataaattcttgaaagcacacaatcacccaagattgagtcagcaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13417246 462 +  21915920 gatacagctaaagtagtcttaagagaagagtttgtagcactaaatgcctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaagtagaaaaacaagatcaaacaaatcctaaaactagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaaatgcaccttaagcaccatataaaggtcaataaaacgaaaatttggttctttgaaaggataaacatggtagacggactgtgagctagattaacatagaaaaaa-gcgatgatccaaataagcatcatcagaaatgacaaaggagacattactactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacacaaaccggaaaatctgtagaaaatggataaattcttgaaagcacaccatcacccaggattgagtcagcaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19919071 462 -  90373283 gatacagctaaagcagtcttaagagaagagtttgtagcactaaatgcctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaactagaaaaacaagatcaaactaatccgaaagctagcagaagaaaagtaatacctgaatcagagcagaactaaatgaaaatgcaccttaagcaccatataaagctcaataaaatgaaaagttggttctttgaaaggataaacatggtagacagactgtgagctagattaacatagaaaaaa-gagatgatccaaataagcatcatcagaaatgacaaaggagacattactactgaccccacagaaacacaaaagatcctcagagactattatgaatgcctctgtgcacacaaaccagaaaacctgtagacaatggagaaattcttgaaagcacacaatcacccacgattgagtcagcaag
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5201560 462 -  13750039 gatacagctaaagcagtcttaagagaagagtttgtagcactaaatgcctacatcaagaagataaaagacctcagactaacaatctaacatcacacctaaaggaactagaaaaacaagatcaaactaaccctaaagctagcagaagaaaagtaatccctgaatcagagcagaactaaatgaaaatgcaccttaagcaccatataaaggtcaataaaatgaaaagttgattctttgaaaggataaacatggtacacggactgtgagctagattaacatagaaaaaa-gagatgatccaaataagcatcatcagaaatgacaaaggagccattactactgaccccacagaaatacaaaagatcctcagagactattatgaatgcctctgtgcacacaaaccagaaaatctgtagaaaatggataaattcttgaaagcgcacaatcacccaagattgagtcagcaag
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24833143 770 -  38779656 I
e manLeu1.NW_012103476v1      3421740 525 +   7543664 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=299127.000000
s hg38.chr21_GL383579v2_alt     64438 69 +    201197 aaaatgcacaaatctcaattgtccagctttactaatt-ttttagactcatatacccaatttcttacaccc
s panTro5.chr21               8686847 69 +  33445071 aaaatgcacaaatctcaattgtccagctttactaatt-ttttagactcatatacccaatttcttacaccc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22222365 69 +  46275980 aaaatgcacaaatctcaattgtccagctttactaatt-ttttagactcatatacccaatttcttacaccc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8204869 69 -  13858734 aaaatgcacaaatctcaattgtccagctttactaatt-ttttagactcatatacccaatttcttacaccc
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160633738 70 - 185818997 aaaatgcacaaatctcaattgtccagcattactaatttttttagactcatatacccaatttcttactctc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167270712 70 - 192294377 aaaatgcacaaatctcaattgtccagcattactaatttttttagactcatatacccaatttcttactctc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4894590 70 -  30496662 aaaatgcacaaatctcaattgtccagcattactaatttttttagactcatatacccaatttcttactctc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13417708 70 +  21915920 aaaatgcacaaatctcaattgtccagcattactaatttttttagactcatatacccaatttcttactctc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19919533 70 -  90373283 aaaatgcacaaatctcaattgtccagcattactaattattttagactcatatacccaatttcttactctc
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5202022 70 -  13750039 aaaatacacaaatctcaattgtccagcattactaatttttttagactcatatacccaacttcttactctc
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24833913 69 -  38779656 aatatgcacaaatcttaatggtacagatttacttaat-ttttaagctcataaatccaattttttacctca
i otoGar3.GL873528          I 770 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e manLeu1.NW_012103476v1      3421740 525 +   7543664 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=2319632.000000
s hg38.chr21_GL383579v2_alt     64507 492 +    201197  
s panTro5.chr21               8686916 492 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22222434 492 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8204938 492 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160633808 482 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167270782 482 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4894660 483 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13417778 478 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19919603 477 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3422265 480 +   7543664  
i manLeu1.NW_012103476v1    M 525 C 0
s colAng1.NW_012120598v1      5202092 486 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24833982 517 -  38779656  
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2298549 13937 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=2944614.000000
s hg38.chr21_GL383579v2_alt     64999 550 +    201197  
s panTro5.chr21               8687408 549 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22222926 549 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8205430 543 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160634290 551 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167271264 551 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4895143 551 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13418256 551 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19920080 551 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3422745 551 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5202578 551 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24834499 548 -  38779656  
i otoGar3.GL873528          C 0 I 649
s dasNov3.JH578070            2312486 553 +   3081153  
i dasNov3.JH578070          I 13937 C 0
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=338492.000000
s hg38.chr21_GL383579v2_alt     65549 77 +    201197 CCCATACATAGTATTA-------AGAGAGAATATATGGTGAATGGATAAGATTATGGCTATTTTATGAAATAAAATATTTACCA
s panTro5.chr21               8687957 77 +  33445071 CCCATACATAGTATTA-------AGAGAGAATATATGGTGAATGGATAAGATTATGGCTATTTTATGAAATAAAATATTTACCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22223475 77 +  46275980 CCCATACATAGTATTA-------AGAGAGAATATATGGTGAATGGATAAGATTATGGCTATTTTATGAAATAAAATATTTACCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8205973 77 -  13858734 CCCATACATAGTATTA-------AGAGAGAATATATGGTGAATGGATAAGATTATGGCTATTTTATGAAATAAAATATTTACCA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160634841 77 - 185818997 TCCATACATAGTATTA-------AGAGTGAACATATGGTGAATGGCTAAGAATATAGCTATTTTATGAAATAAAATATATACCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167271815 77 - 192294377 TCCATACATAGTATTA-------AGAGTGAACATATGGTGAATGGCTAAGAATATAGCTATTTTATGAAATAAAATATATACCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4895694 77 -  30496662 TCCATACATAGTATTA-------AGAGTGAACATATGGTGAATGGCTAAGAATATAGCTATTTTATGAAATAAAATATATACCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13418807 77 +  21915920 TCCATACATAGTATTA-------AGAGTGAACATATGGTGAATGGCTAAGAATATAGCTATTTTATGAAATGAAATATATACCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19920631 75 -  90373283 TCCATACATAGTATT---------GAGTGAACATATGGTGAATGGCTAAGAATATAGCTATTTTATGAAATAAAATATATACCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3423296 77 +   7543664 TCCATACATAGTATTA-------AGAGTGAACATATGGTGAATGGCTAAGAATATAGCTATTTTATGAAATAAAATATATACCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5203129 75 -  13750039 TCCATACATAGTATT---------GAGTAAACATATGGTGAATGGCTAAGAATATGGCTATTTTATGAAATAAAATATATACCA
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2313039 60 +   3081153 CTTATACATAACTTTGGCATTTTATAGAGAAAATGTAGTCAA-GGTTAAGA------CTATATCATG-----------------
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24835047 649 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=2268841.000000
s hg38.chr21_GL383579v2_alt     65626 459 +    201197 AAACATGTTATAGTCATATATAGTAAAGGAGAGATCTCAAAATAACACTTTCTTTTTCTTATGTTTTGTATAGAATGTGCTTATGTATAAAACATGCATATACATTTGCATGTAC-TTTAAGAAGTCATGTTTTTATGCATTCTTTTTCATTTAGTTACATGAGTGGAATA-AAAAATATTTAATTATATAT---TATTAATTA--TGGTAAAGATTCATTTTTCT-----TTTCATCAAAT------------------ATGCTCTAAAACTAAATTTGTAATGGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTC-TTCATTGTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTTTATATTTCCCTATAAGCATACTGCAACAA---GAGATGAAGCAGCAATATGATCATACTATTGATCAAATCTTTTGATCAAATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAG--TTCTTA
s panTro5.chr21               8688034 454 +  33445071 AAACATGTTATAGTCATATATAGTAAAGGAGAGATCTCAAAATAACACTTTCTTTTTCTTATGTTTTGTATAGAATGTGCTTATGTATAAAACATGCATATACATTTGCATGTAC-TTTAAGAAGTCATATTTTTATGCATTCTTTTTCATTTAGTTACATGAGTGGAATA-AAAAATATTTAATTATATAT---TATTAATTA--TGGTAAAGATTCAT-----T-----TTTCATCAAAT------------------ATGCTCTAAAACTAAATTTGTAATGGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTC-TTCATTGTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTTTATATTTCCCTATAGGCATACTGCAACAA---GAGATGAAGCAGCAATATGATCATACTATTGATCAAATCTTTTGATCAAATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAG--TTCTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22223552 454 +  46275980 AAACATGTTATAGTCATATATAGTAAAGGAGAGATCTCAAAATAACACTTTCTTTTTCTTATGTTTTGTATAGAATGTGCTTATGTATAAAACATGCATATACATTTGCATGTAC-TTTAAGAAGTCATATTTTTATGCATTCTTTTTCATTTAGTTACATGAGTGGAATA-AAAAATATTTAATTATATAT---TATTAATTA--TGGTAAAGATTCAT-----T-----TTTCATCAAAT------------------ATGCTCTAAAACTAAATTTGTAATGGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTC-TTCATTGTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTTTATATTTCCCTATAGGCATACTGCAACAA---GAGATGAAGCAGCAATATGATCATACTATTGATCAAATCTTTTGATCAAATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAG--TTCTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8206050 458 -  13858734 AAACATGTTATAGTCATATATAGTAAAGGAGAGATCTCAAAATAACACTTTCTTTTTCTTATGTTTTGTATAGAATGTGCTTATGTATAAAACATGCATATATATTTTCATGTAC-TTTAAGAAGTCATATTTTTATGCATTCTTTTTCATTTAGTTACATGAGTGGAATA-AAAAATATTTAATTCTATAT---TATTAATTA---GGTAAAGATTCATTTTTCT-----TTTCATCAAAT------------------ATGCTCTAAAACTAAATTTGTAATGGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTC-TATCATGTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTTTATATTTCCCTATAGGCATACTGCGACAA---GAGATGAAGCAGCAATATGATCATACTATTGATCAAATCTTTTGATCAAATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAG--TTCTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160634918 457 - 185818997 AAACATATTATAGTCATATATAGTAGAGGAGAGAGCTCAAAATAACACTTACTTTTTCTTATGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAC-TTTAAGAAGTCTTATTTTTATGCATTCTTTTTCATTTAGTT--ATGAGTGGAATA-AAAATTATTTAATTCTATAA---TATTAATTA--TAGTAAAGATTCATTTTTCT-----TTTCATCATGT------------------ATGCTCTAAAACTAAATTTGTAATAGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTATGTATTTCCCTATAGGCATACTACAACAA---GAGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCATATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAA--TTCTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167271892 457 - 192294377 AAACATATTATAGTCATATATAGTAGAGGAGAGAGCTCAAAATAACACTTACTTTTTCTTATGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAC-TTTAAGAAGTCTTATTTTTATGCATTCTTTTTCATTTAGTT--ATGAGTGGAATA-AAAATTATTTAATTCTATAA---TATTAATTA--TAGTAAAGATTCATTTTTCT-----TTTCATCATGT------------------ATGCTCTAAAACTAAATTTGTAATAGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTATGTATTTCCCTATAGGCATACTACAACAA---GAGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCATATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAA--TTCTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4895771 457 -  30496662 AAACATATTATAGTCATATATAGTAGAGGAGAGAGCTCAAAATAACACTTACTTTTTCTTATGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAC-TTTAAGAAGTCTTATTTTTATGCATTCTTTTTCATTTAGTT--ATGAGTGGAATA-AAAATTATTTAATTCTATAA---TATTAATTA--TGGTAAAGATTCATTTTTCT-----TTTCATCATGT------------------ATGCTCTAAAACTAAATTTGTAATAGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTATGTATTTCCCTATAGGCATACTACAACAA---GAGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCATATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAA--TTCTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13418884 460 +  21915920 AAACATATTATAGTCATATATAGTAGAGGAAAGAGCTCAAAATAACACTTACTTTTTCTTATGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAC-TTTAAGAAGTCTTATTTTTATGCATTCTTTTTCATTTAGTT--ATGAGTGGAATA-AAAATTATTTAATTCTATAATATTATTAATTA--TGGTAAAGATTCATTTTTCT-----TTTCATCAAGT------------------ATGCTCTAAAACTAAATTTGTAATAGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGCATGTATTTCCCTATAGGCATACTGCAACAA---GAGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCATATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAA--TTCTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19920706 460 -  90373283 AAACATGTTATAGTCATATATAGTAGAGGAGAGAGCTTAAAATAACACTTACTTTTTCTTATGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAC-TTTAAGAAGTCATATTTTTATGCATTATTTTTCATTTAGTT--ATGAGTGGAATA-AAAATTATTTAATTCTATCATATTATTAATTA--TGGTAAAGATTCATTTTTCT-----TTTCATCAAGT------------------ATGTTCTAAAACTAAATTTGTAGTAGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCCTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATGGAGTATATATTTCCCTATAGGCATACTGCAACAA---GGGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCAAATCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCAAAA--TTCTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3423373 460 +   7543664 AAACATATTATAGTCATATATAGTAGAGGAGAGAGCTCAAAATAACACTTACTTTTTCTTATGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAC-TTTAAGAAGTCTTATTTTTATGCATTCTTTTTCATTTAGTT--ATGAGTGGAATA-AAAATTATTTAATTCTATAATATTATTAATTA--TGGTAAAGATTCATTTTTCT-----TTTCATCAAGT------------------ATGCTCTAAAACTAAATTTGTAATAGTATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATAGAGTATGTATTTCCCTATAGGCATACTGCAACAA---GAGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCATATCTATTGTG-CT----TCTGTTTTTCCTTTTTTGCAAAA--TTCTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5203204 452 -  13750039 AAACACATTATAGTCATATATAGTAG-----AAAGCTCAAAATAACACTTTCTTTTTCT--TGTTTTGTATATAATGCACCTATGTATAAAATATGCATATAT-TTTGCATATAG-TTTAAGAAGTCATATTTTTATGCATTCTTTTTCATTTAGTTACATGAGTGGAATA-AAAAGTATTTAATTCTATAATATTAATAATTA--TGGTAAAGATTCATTTTTCT-----TTTCATCAAGT------------------ATGCTCTAAGACTAAATTTGTAA---TATCAAAATAAAAGTAGAAAA--AAGTGTTTCTTCTCCCTTCTTTCATTTTTCTTTGATTTTAAATGTTTTTCTTTAAGATTGAGTATATATTTCCCTATAGGCATACTGCAACAA---GAGATGAAGCAGCAATACGATCATACTATTGATCAAATCTTTTGATCAAACCTATTGTG-TT----TCTGTTTTTCCTTTTTTGCCAAG--TTCTTA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24835696 463 -  38779656 AAACATCCCATAGTCATAGATGA-----GAAAGAGCTAAATGCAATAATTTCCCTTTCATATATTTTACATATCAC---------------ATATACATATGTATTTGTATACA--TTTAAGAAGTCAGATTGTTGTATA-TATTCTTTGCTTATTTATATGAGTTGAATACAAAAATATTTAAATTTATGA---AAATTGTCATGTGGTAAGGATTGATTTTTCTTTAAATTACCTCAAGTGAATGAAGGAATGAATGAATATCCTTAAAATGAATTTGTAGTGCAATCAAAATATAGGTATAAAGACAAGCGTTTC-TCTGCCTTCCTT--TTCACCCCTGAGTTTAAATG---TTCTTTAAGGCTGAGTTTGTGTCTCCCCATAGGCAT-CTGCAGCAATGGGAGACTGAACAGCAGTGTGGACATCCTACTGCTCAAATCTTTTCACTAATTCTGTCACATTT----TCTATTTTCCCTTCTTTGTAAAG--TCTTCA
i otoGar3.GL873528          I 649 I 4059
s dasNov3.JH578070            2313099 402 +   3081153 ----------TAGCCATATATGATAAATAAAAGATCTAAAAATTTGCTTTAATTTTCTACATTAAAGGCGTGAAATATAGTTGCATATAA-ATATGCATATA--TGTACAAACACATTTATAAAGTCatat----------tattttttatattttt---------------aaatttcattaatt---------CATTAACTT-----TAAAGACCTACAACTCA-----CTTTTTTA---------------------GTGGGTGAAAGATAAAT--------GTATATAAATATATACAGAAGA--TA--GTTTCTTCT-CCTCCATTGATTCTTGTTTGATTTTAAAATGCCCTCGT--ACATCACACTTCTGTCTTCTCATAGACATTCTATAACAAT--GAGAT--ACTTATTAGATGGAAAAACTA--GATCAAATCTTTTGATAGATTCTCCTGCA-TTTTCCTTCATTTTCATTTCTCTGCAGAGAACTATTA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=1449334.000000
s hg38.chr21_GL383579v2_alt     66085 293 +    201197 CTCTCCCATGACTTCATGTAAATTGATTTA-AGTATATTGC--CATACAAGATAGTTCAAATGGAGATAAATATTG----CAGTGTTTCTCTTGACATACCTAATGCCTTTTTTTAAGGACTGCTTCAAGGTGTACAAAT-----AATGCTATCTATAT----AAATGTTAAACTATACCTAATTCTACTTTTAAATAT---AGTGTAATGATTTTGCAATAAGATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATAATTTCTAAAATAATTGTAACACGTAGAGTTAACCATCACTGAAATAACT
s panTro5.chr21               8688488 293 +  33445071 CTCTCCCATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATAGTTCAAATGGAGATAAATATTG----CAGTGTTTATCTTGACATATCTAATGCCTTTTTTTAAGGACTGCTTCAAGGTGTACAAAT-----AATGCTATCTATAT----AAATGTTAAACTATACCTAATTCTACTTTTAAATAT---AGTGTAATGATTTTGCAATAAGATATCAAGTACACAGTTTTAAAAATGTTAAC-TGCACATAATTTCTAAAATAATTGTAACATGTAGAGTTAACCATCACTGAAATAACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22224006 293 +  46275980 CTCTCCCATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATAGTTCAAATGGAGATAAATATTG----CAGTGTTTCTCTTGACATATCTAATGCCTTTTTTTAAGGACTGCTTCAAGGTGTACAAAT-----AATGCTATCTATAT----AAATGTTAAACTATACCTAATTCTACTTTTAAATAT---AGTGTAATGATTTTGCAATAAGATATCAAGTACACAGTTTTAAAAATGTTAAC-TGCACATAATTTCTAAAATAATTGTAACATGTAGAGTTAACCATCACTGAAATAACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8206508 293 -  13858734 CTCTCCCATGACTTCATATAAATTGATTTA-AGTATATTGT--CATACAAGATAGTTCAAATGGAGATAAATATTG----CAGTGTTTCTCTTGACATACTTAATGCCTTTTTTTAAGGACTGCTTCAAGGTGTACAAAT-----AATGCTATCTATAT----AAATGTTAAAGTATACCTAATTCTACTTTTAAATAT---AGTGTAATGATTTTGCAATAAGATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATAATTTATAAAATAATTGTAACATGTAGAGTTAACCATCACTGAAATAACT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160635375 297 - 185818997 CTCTCCTATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATTGTTCAAATGGAGATAAATATTGCAAACAGTATTTATCTTGACATATCTAATGCCTCTTTTAAAGGACTGCTTCAAGGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCCTCTATTAAATAT---AGTGTAATGATTTTGCAATAACATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATCATTTCTAAAATACCTGTAACATGTAGAGTTAACAATCACTGAAATAACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167272349 297 - 192294377 CTCTCCTATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATTGTTCAAATGGAGATAAATATTGCAAACAGTATTTATCTTGACATATCTAATGCCTCTTTTAAAGGACTGCTTCAAGGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCCTCTATTAAATAT---AGTGTAATGATTTTGCAATAACATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATCATTTCTAAAATACCTGTAACATGTAGAGTTAACAATCACTGAAATAACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4896228 297 -  30496662 CTCTCCTATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATTGTTCCAATGGAGATAAATATTGCAAACAGTATTTATCTTGACATATCTAATGCCTCTTTTAAAGGACTGCTTCAAGGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCCTCTATTAAATAT---AGTGTAATGATTTTGCAATAACATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATCATTTCTAAAATACCTGTAACATGTAGAGTTAACAATCACTGAAATAACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13419344 297 +  21915920 CTCTCCTATGACTTCATGTAAATTGAGTTA-AGTATATTGT--CTTACAAGATGGTTCAAATGGAGATAAATATTGCAAACAGTATTTATCTTGACATATCTAATGCCTCTTTTAAAGGACTGCTTCAAGGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCCTCTATTAAATAT---AGTGTAATGATTTTGCAATAACATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATCATTTCTAAAATACCTGTAACATGTAGAGTTAACAATCACTGAAATAACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19921166 297 -  90373283 CTCTCCTATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATGGTTCAAATGGAGATAAATATTGCAAACAGTATTTATCTGGACATATCTAATGCCTCTTTTAAAGGACTGCTTCAACGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCCTCTATTAAATAT---AGTGTAATGATTTTGCAATAACATATCAAGTAGACAGTTTTGAAAATGTTAAC-TGCACATCATTTCTAAAATAATTGTAACATGTAGAGTTAACAATCACTGAAATAACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3423833 297 +   7543664 CTCTCCTATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATGGTTCAAATGGAGATAAATATTGCAAACAGTATTTATCTTGACATATCTAATGCCTCTTTTAAAGGACTGCTTCAAGGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCCTCTATTAAATAT---AGCGTAATGATTTTGCAATAACATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATCATTTCTAAAATACCTATAACATGTAGAGTTAACAATCACTGAAATAACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5203656 297 -  13750039 CTCTCCTATGACTTCATGTAAATTGATTTA-AGTATATTGT--CATACAAGATGGTTCAAATGGAGATAAATATTGCAAACAGTATTTATCTTGACATATCTAACGCCTCCTTTAAAGGACTGCTTCAAGGTGTACAAAT-----AATGTTATCTATAT----AAATGTTAAAGTATACCTAATTCTACTTTTAAATAT---AGTGTCATGATTTTGCAATAAGATATCAAGTAGACAGTTTTAAAAATGTTAAC-TGCACATAATTTCTAAAATAATTGTAACATGTAGAGTTAACAATCACTGAAATAACT
i colAng1.NW_012120598v1    C 0 M 547
s dasNov3.JH578070            2313501 293 +   3081153 -----ATGTTACCTTCTCTGAATTAGTTTAGAATATACTGTAACATAAAAAAAAGTTCTAAT--AGATGAATATTATGAA-AGTATTTTTCCTGGTATACATCAAACGTCCATTTGAGGAA-----AAAAGCATTCAAATATAAAAATGGTATTGACATTGTGAAATATTTAAGTGTATCt-attttaattttaaatatataagtttaatgatttt-taaGAAGACATTAAGTATTCAGTTTCAAAAACGTCAACATCTATGTAATTCCTGAAAAAA----GACATGTACAGAAATGAATCA-TAAAATAACC
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=659776.000000
s hg38.chr21_GL383579v2_alt     66378 162 +    201197 GTTGGATCTAAGCCTACTTGTTTTATATTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTAATATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATTGTATACGAGGACCATAT
s panTro5.chr21               8688781 162 +  33445071 GTTGGATCTAAGCCTACTTGTTTTATATTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTAATATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATTGTATACGAGGACCACAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22224299 162 +  46275980 GTTGGATCTAAGCCTACTTGTTTTATATTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTAATATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAATGGTGCTTT----------CTTAGAAATGCTTGCTCCCATTGTATACGAGGACCACAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8206801 162 -  13858734 GTTGGATCTAAGCCTACTTGTTTTATATTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTAATATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCTATTGTATACGAGGACCACAT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160635672 161 - 185818997 -TTGGATCTAAGCCTACTTGTTTTATGGTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTACTATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATCGTACATGAGGATCACAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167272646 161 - 192294377 -TTGGATCTAAGCCTACTTGTTTTATGTTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTACTATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATCGTACATGAGGATCACAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4896525 161 -  30496662 -TTGGATCTAAGCCTACTTGTTTTATGTTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTACTATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATCGTACATGAGGATCACAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13419641 161 +  21915920 -TTGGATCTAAGCCTACTTGTTTTATGTTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTACTATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATCGTACATGAGGATCACAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19921463 161 -  90373283 -TTGGATCTAAGCCTACTTGTTTTATGTTAGTAG-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTACTATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATCGTACATGAGGATCACAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3424130 161 +   7543664 -TTGGATCTAAGCCTACTTGTTTTATGTTAGTAC-----------------CAAACAATAAAGAAA---------------TGCCAAGATTATTAT----------TGGTTTTACTATAAAAATGTGTAGCAAGTATTAAT--TTTTCATTATTTTAGTGGTGCTTT----------CTTAGAAATGCTTGCTCCCATCGTACATGAGGATCACAA
i manLeu1.NW_012103476v1    C 0 C 0
s dasNov3.JH578070            2313794 210 +   3081153 GTTGACTGTA----TCATTGCTTTATAGTAGAACACAGTATCTTTGCTTTATAAATAGTAAGTAAAGAATTGTCATGATTCTGTCAAGATCCTTTTGTCAAGATCACGGACTCATTA-AAAACTGTGTAACAAATGTATATTATTTTAATCATTTTAG-GGTTTTCTAATTCTTATGCTCAAATATGCTTGAGTCTATATTCTATCAAGATTACAT
i dasNov3.JH578070          C 0 I 5
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5203953 547 -  13750039 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=1144104.000000
s hg38.chr21_GL383579v2_alt     66540 321 +    201197 CTTggtggagcgcagcggcttttgcctgtaatcccaacactttctctgaagatgagagcagaggattgcttgagcccagaagttcaagaccagcctgggcaagagaggaaaac-ccccatctc-aaaaaaaaa-------aaaaaaaaaaaaaattaaaacattggctggccacaaaggtatgtggctgtagtcccacctactcaggaggctgaggtgggagaatcccttgagctcaggagtttcagaatgcagtacactgtgattacatcactgcacttaaac------ctggataggagaggaagaccctgtctt----tctctcaaaaaaaTTATAT
s panTro5.chr21               8688943 317 +  33445071 CTTggtggagcgcagcggcttttgcctgtaatcccaacactttctctgaagatgagagcagaggattgcttgagcccagaagttcaagaccagcctgggcaagagaggaaaac-ccccatctc-----aaaaa-------aaaaaaaaaaaaaattaaaacattggctggccacaaaggtatgcggctgtagtcccacctactcaggaggctgaggtgggagaatcccttgagctcaggagtttcagaatgcagtacactgtgattacatcactgcacttaaac------ctggataggagaggaagacactgtctt----tctctcaaaaaaaTTATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22224461 315 +  46275980 CTTggtggagcgcagcggcttttgcctgtaatcccaacactttctctgaagatgagagcagaggattgcttgagcccagaagttcaagaccagcctgggcaagagaggaaaac-ccccatctc-------aaa-------aaaaaaaaaaaaaattaaaacattggctggccacaaaggtatgcggctgtagtcccacctactcaggaggctgaggtgggagaatcccttgagctcaggagtttcagaatgcagtacactgtgattacatcactgcacttaaac------ctggataggagaggaagacactgtctt----tctctcaaaaaaaTTATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8206963 321 -  13858734 CTTggtggagcgcagtggcttttgcctgtaatcccaacactttctctgaagatgagagcagaggattgcttgagcccagaagttcaagaccagcctgggcaagagaggaaaa--ccccatctcaaaaaaaaaa-------aaaaaaaaaaaaaattaaaacattagctggccacagaggtatgtggctgtagtcccacccactcaggaggctgaggtgggagaatcccttgagctcaggagtttcagaatgcagtacactgtgattacaccactgcacttaaac------ctggataggagaggaagaccctgtctt----tctctcaaaaaaaTTATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160635833 320 - 185818997 CTTggtggagtgcagtggcttctgcctgtaatcccaacactt--tctgaggatgagaagggaggattgcttgagtccagaagttcaagactagcctgggcaagagaggaaaaccccccatttc---------c-------aaaaaaagaaaaaattaaaacattagctggacacaaagatatgtggctgtagttccaactactcaggaggctgaggtgggaggatcccttgagctcgggagtttcagaatgcagtacactgtgattacaccacttctcttaaacctggatctggatgagagaggaagacc--gtctttctctctctcaaaaaaaTTACAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167272807 320 - 192294377 CTTggtggagtgcagtggcttctgcctgtaatcccaacactt--tctgaggatgagaagggaggattgcttgagtccagaagttcaagactagcctgggcaagagaggaaaaccccccatttc---------c-------aaaaaaagaaaaaattaaaacattagctggacacaaagatatgtggctgtagttccaactactcaggaggctgaggtgggaggatcccttgagctcgggagtttcagaatgcagtacactgtgattacaccacttctcttaaacctggatctggatgagagaggaagacc--gtctttctctctctcaaaaaaaTTACAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4896686 322 -  30496662 CTTggtggagtgcagtggcttctgcctgtaatcccaacactt--tctgaggatgagaagggaggattgcttgagtccagaagttcaagactagcctgggcaagagagaaaaaccccccatttc---------c-------aaaaaaagaaaaaattaaaacattagctggacacaaagatatgtggctgtagttccaactactcaggaggctgaggtgggaggatcccttgagctcgggagtttcagaatgcagtacactgtgattacaccacttctcttaaacctggatctggatgagagaggaagaccctgtctTTCTCTCTCTCAAAAAAATTACAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13419802 322 +  21915920 CTTggtggagtgcagtggcttctgcctgtaatcccgacactt--tctgaggatgaggagggaggattgcttgagtccagaagttcaagactagcctgggcaagagaggaaaaccccccatttc---------c-------aataaaagaaaaaattaaaacaatagctggacacaaagatatgtggctgtagttccaactcctcaggaggctgaggtgggaggatcccttgagcttgggagtttcagaatgcagtacactgtgattacaccacttctcttaaacctggatctggatgagagaggaagaccctgtctTTCTCTCTCTCAAAAAAATTACTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19921624 329 -  90373283 CTTggtggagtgcagtggctcctgcctgtaatcccaacactt--tctgaggatgagaagggaggattgcttgagtccagaagttcaagaccagcctgggcaagagaggaaaacaccccatttc---------caaaaaaaaaaaaaaaaaaaaattgaaacattagctggacacaaagatatgtgagcgtagtcccaactcctcaggaggctgaggtgggaggatcccttgagctggggagtttcagaatgcagtacactgtgattacacctcttctcttaaacctggatctggatgagagaggaagaccctgtctTTCTCTCTCTCAAAAAAATTACAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3424291 322 +   7543664 CTTggtggagtgcagtggcttctgcctgtaatcccaacactt--tctgaggatgagaagggaggattgcttgagttcagaagttcaagactagcctgggcaagagaggaaaacctcccatttc---------c-------aaaaaaagaaaaaattaaaacattagctggacacaaagatatgtggctgtagttccaactactcaggaggctgaggtgggaggatcccttgagctcgggagtttcagaatgcagtacactgtgattacaccacttctcttaaacctggatctggatgagagaggaagaccctgtctTTCTCTCTCTCAAAAAAATTACAT
i manLeu1.NW_012103476v1    C 0 C 0
e dasNov3.JH578070            2314004   5 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5203953 547 -  13750039 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=254781.000000
s hg38.chr21_GL383579v2_alt     66861 67 +    201197 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTATTGAAAAATTGATTTTGCATAATTTTATTG
s panTro5.chr21               8689260 67 +  33445071 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTATTGAAAAATTGATTTTGCATAATTTTATTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22224776 67 +  46275980 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTATTGAAAAATTGATTTTGCATAATTTTATTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8207284 67 -  13858734 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTATTGAAAAATTGATTTTGCATAATTTTATTG
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160636153 67 - 185818997 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTGTTGAAAAATTTATTTTGCGTAATTTCTTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167273127 67 - 192294377 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTGTTGAAAAATTTATTTTGCGTAATTTCTTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4897008 63 -  30496662 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTGTTGACAAATTTATTTTGCGTAATTTC----
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13420124 67 +  21915920 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTGTTGACAAATTTATTTTGCATAATTTCTTTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19921953 63 -  90373283 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTGTTGAAAAATTTATTTTGCATAATTTC----
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3424613 63 +   7543664 TTTGGT---ATAAAGACAGATTATTTTAGATCAAAATCTGTTGACAAATTTATTTTGCATAATTTC----
i manLeu1.NW_012103476v1    C 0 C 0
s dasNov3.JH578070            2314009 70 +   3081153 TTTGGTAAAAAAAAAACTGATTAATATGGATGATATTCTATTGAAAATTTTTTCACACATGAACTTAGAG
i dasNov3.JH578070          I 5 C 0
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5203953 547 -  13750039 M
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=442902.000000
s hg38.chr21_GL383579v2_alt     66928 89 +    201197 TTTGCTGGATGTACTGTTGTTTTCCCACAAATCATTAATGTGGAAAAAAATAAATATGCA-TTTTTTTTCTAACTGAACCTAATGTATAT
s panTro5.chr21               8689327 89 +  33445071 TTTGCTGGATGTACTGTTGTTTTCCCACAAATCATTAATGTGGAAAAAAATAAATATGCA-TTTTTTTTCTAACTGAACCTAATGTATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22224843 89 +  46275980 TTTGCTGGATGTACTGTTGTTTTCCCACAAATCATTAATGTGGAAAAAAATAAATATGCA-TTTTTTTTCTAACTGAACCTAATGTATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8207351 90 -  13858734 TTTGCTGGATGTACTGTTGTTTTCCCACAAATCATTAATGTGGAAAAAAATAAATATGCATTTTTTTTTCTAACTGAACCTAATGTATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160636220 89 - 185818997 TTTGCTGGATGTACTGTTGTTTTCAAACAAATCATTAAGGTGGAAAAAAATAAATATGAA-TTTTTTTTCTAACTAAACCTAATGTATAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167273194 89 - 192294377 TTTGCTGGATGTACTGTTGTTTTCAAACAAATCATTAAGGTGGAAAAAAATAAATATGAA-TTTTTTTTCTAACTGAACCTAATGTATAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4897071 89 -  30496662 TTTGCTGGATGTACTGTTGTTTTCAAACAAATCATTAAGGTGGAAAAAAATAAATATGAA-TTTTTTTTCTAACTGAACCTAATGTATAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13420191 89 +  21915920 TTTGCTGGATGTACTGTTGTTTTCAAACAAATCATTAAGGTGGAAAAAAATAAATATGAA-TTTTTTTTCTAACTGAACCTAATGTATAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19922016 89 -  90373283 TTTGCTGGATGTACTGTTGTTTTCAAACAAATCAGTAAGGTGGAAAAAAATAAATACGAA-TTTTTTTTCTAACTGAACCTAATGTATAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3424676 89 +   7543664 TTTGCTGGATGTACTGTTGTTTTCAAACAAATCATTAAGGTGGAAAAAAATAAATATGAA-TTTTTTTTCTAACTGAACCTAATGTATAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5204505 88 -  13750039 TTTGCTGGATGTACTGTTGTTTTCTAACAAATCATTAAGGTGGAAAAAAATAAATATGAA--TTTTTTTCTAACTGAATCTAATGTATAT
i colAng1.NW_012120598v1    M 547 C 0
s dasNov3.JH578070            2314079 76 +   3081153 TTTACTGATTAT-------TTTTTACACAGATCACAAAG------AAAAATAAATCCTGT-ATTCTTCTCTAACTGAACTTAGAGTATGT
i dasNov3.JH578070          C 0 I 5039
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=2797651.000000
s hg38.chr21_GL383579v2_alt     67017 596 +    201197  
s panTro5.chr21               8689416 596 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22224932 595 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8207441 596 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160636309 601 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167273283 601 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4897160 601 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13420280 600 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19922105 601 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3424765 601 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5204593 601 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e dasNov3.JH578070            2314155 5039 +   3081153 I
e cebCap1.NW_016107322v1     13887487 2258 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e calJac3.chr21              26468092 2535 +  50472720 I
e saiBol1.JH378168            8660335 2248 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=57759.000000
s hg38.chr21_GL383579v2_alt     67613 7 +    201197 tgtcagt
s panTro5.chr21               8690012 7 +  33445071 tgtcagt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22225527 7 +  46275980 tggcagt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208037 7 -  13858734 TGTCAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160636910 7 - 185818997 TGTCAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167273884 7 - 192294377 TGTCAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4897761 7 -  30496662 TGTCAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13420880 7 +  21915920 TGTCAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19922706 7 -  90373283 TGTCAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3425366 7 +   7543664 TGTCAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5205194 7 -  13750039 TGTCAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26470627 7 +  50472720 tgtcagt
i calJac3.chr21             I 2535 C 0
s saiBol1.JH378168            8662583 7 +  13128814 tgtcagt
i saiBol1.JH378168          I 2248 C 0
s cebCap1.NW_016107322v1     13889745 7 -  14377064 tgtcagt
i cebCap1.NW_016107322v1    I 2258 C 0
e dasNov3.JH578070            2314155 5039 +   3081153 I
e canFam3.chr31              18009504 3308 +  39895921 I
e aotNan1.NW_018487195v1      9124086 148 -   9889416 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=1539122.000000
s hg38.chr21_GL383579v2_alt     67620 186 +    201197 gtctgtttccctgcattatgcagccactaaggtctctggtcaggttttttaaagattattttcacttttattataaattgccaggtgttgccacttatttagtaaagcttagggttcagccagtgatcagatgttgtgattgaatcctgtgagccaaaaaggcaccaaccctttgccaatacaagt---------
s panTro5.chr21               8690019 186 +  33445071 gtctgtttccctgcattatgcagccactaaagtctctggtcaggttttttaaagattattttcacttttattataaattgccaggtgttgccacttatttagtaaagcttagggttcagccagtgatcagatgttgtgattgaatcctgtgagccaaaaaggcaccaaccctttgccaatacaagt---------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22225534 186 +  46275980 gtctgtttccctgcattatgcagccactaaagcctctggtcaggttttttaaagattattttcacttttattataaattgccaggtgttgccacttatttagtaaagcttagggttcagccagtgatcagatgttgtgattgaatcctgtgagccaaaaaggcaccaaccctttgccaatacaagt---------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208044 186 -  13858734 gtctgtttccctgcattatgcagccactaaagtctctggtcaggttttttaaagattattttcacttttattataaattgccaggtgttgccacttatttagtaaagcttagggttcagccagtgatcagatgttgtgactgaatcctgtgagccaaaaaggcgccaaccctttgccaatacaagt---------
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160636917 186 - 185818997 gcctgtttccttgcattatacagccactaaagcctctgctcaggttttgtaaatattatttccatttatcttataaattgccaggtgttgccacttatttagtaaaggttagggttcagccagtgatcagaagttgtgattgaatcctgtgagccaaaaaggccccaaccctttgccgatacaagt---------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167273891 186 - 192294377 gcctgtttccttgcattatacagccactaaagcctctgctcaggttttgtaaatattattttcatttatcttataaattgccaggtgttgccacttatttagtaaaggttagggttcagccagtgatcagaagttgtgattgaatcctgtgagccaaaaaggccccaaccctttgccgatacaggt---------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4897768 186 -  30496662 gcctgtttccttgcattatacagccactaaagcctctgctcaggttttgtaaatattattttcatttatcttataaattgccaggtgttgccacttatttagtaaaggttagggttcagccagtaatcagaagttgtgattgaatcctgtgagccaaaaaggccccaaccctttgccgatacaagt---------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13420887 186 +  21915920 gcctgtttccttgcattatacagccactaaagcctctgctcaggttttgtaaatactattttcatttatcttataaattgccaggtgttgccacttatttagtaaaggttagggttcagccagtgatcagaagttgtgattgaatcctgtgagccaaaaaggccccaaccctttgccgatacaagt---------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19922713 186 -  90373283 gtctgtttccttccattatacagccactaaagcctctgctcaggttttttaaatattattttcatttatcttataaattgccaggtgttgccacttacttagtaaaggttagggttcagccagtgatcagaagttgtgattgaatcctgtgagccaaaaaggccccaaccctttgccgatacaagt---------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3425373 186 +   7543664 gcctgtttccttgcattatacagctactaaagcctctgctcaggttttgtaaatattattttcatttatcttataaattgccaggtgttgccacttatttagtaaaggttagggttcagccagtgatcagaagttgtgattgaatcctatgagccaaaaaggccccaaccctttgccgatacaagt---------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5205201 186 -  13750039 gtctgtttccttgcattatacagccactaaagcctctgctcaggttttttaaatattattttcatttatcttataaattaccaggtgttgccacttatttagtaaaggttagggttcagccagtgatcagaagttgtgattgaatcctgtgagccaaaaaggccccaaccctttgccgatACAAGT---------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26470634 192 +  50472720 gtctgtttctttgcattatgcaaccactaaggtctctgctcagGTTTCTTAAATATTACTTTCATTTATTTTATAAATTGCTAGATGCTGC--CTACTTTAGTAAAGCTTAGGGTTCAGCCAGTGTTCAGAAGTTGTGATTGAATCCTGTG-GTCCAAGAGGCGCCAACCTTTTGCCAATACAAGTATATTGCAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8662590 194 +  13128814 gtctgtttccttgcattatgcaaccactgaggtctctgctcaggcttcttaaatattactttcatttatattataaattgttaggtgcttccactaatttagtaaagcttagggttcagccagtgatcagaggttgtgattgaatcctgtg-gtgcaagaggccccacccctttgccaatacaagtatattgcat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13889752 194 -  14377064 gtctatttccttgcattatgcaaccactaaggtctctgctcaggtttcttaaacattactttcatttatattataaattgctaggtgctgccactaatttagtaaagcttagggttcagccagtgatcagaggttgtgattgaatactgtg-gtccaagaggccccaaccttttgccaatacaaatatattgcat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9124234 194 -   9889416 gtctgtttccttgcattatgcaaccactaaggtctctgctcagctttcttaaatattactttcatttatattataaattgctaggtgctgccactaatttagtaaagcttagagttcagccagtgatcagaggttgtgattgaatcctgtg-gtccaagaggccccaaccttttgccaatacaagtatattgcat
i aotNan1.NW_018487195v1    I 148 C 0
e dasNov3.JH578070            2314155 5039 +   3081153 I
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=926853.000000
s hg38.chr21_GL383579v2_alt     67806 136 +    201197 gtattggatga-taagttctttcaagacttagacaatttacaagattgtgtcatca-ttttttccatcttttacatttactagatcttgtgttcagtaaagg-----atgaactactcactaagtttctttgttatg--tatcct
s panTro5.chr21               8690205 136 +  33445071 gtattggatga-taagttctttcaagacttagacaatttacaagattgtgtcatca-ttttttccatcttttacatttactagatcttgtgttcagtaaagg-----atgaactactcactaagtttctttgttatg--tatcct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22225720 136 +  46275980 gtattggatga-taagttctttcaagacttagacaatttacaagattgtgtcatca-ttttttccatcttttacatttactagatcttgtgttcagtaaagg-----atgaactactcactaagtttctttgttatg--tatcct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208230 136 -  13858734 gtattggatga-taagttctttcaagacttagacaatttacaagattgtgtcatca-tttttttcatcttttacatttactagatcttgtgttcagtaaagg-----atgaactactcactaagtttctttgttatg--tatcct
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160637103 135 - 185818997 gtattgggtgg-taagttcattgaagactttgacaatttacaagatagtgccatca-ttttttccatcttttacatttactagat-ttgtgttcagtacagg-----atgaactacccagtaagtttctttcttatc--tctcct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167274077 135 - 192294377 gtattggatgg-taagttcgttgaagactttgacaatttacaagatagtgccatca-ttttttccatcttttacatttactagat-ttgtgttcagtacagg-----atgaactacccagtaagtttctttcttatc--tctcct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4897954 135 -  30496662 gtattggatgg-taagttcattgaagactttgacaatttacaagatagtgccatca-ttttttccatcttttacatttactagat-ttgtgttcagtacagg-----atgaactacccagtaagtttctttcttatc--tctcct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13421073 135 +  21915920 gtattggatgg-taagttcattgaagactttgacaatttacaagatagtgccatca-ttttttccatcttttacatttactagat-ttgtgttcagtacagg-----atgaactacccagtaagtttctttcttatc--tctcct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19922899 135 -  90373283 gtattggatgg-taagttcattcaagacttcgataatttacaagattgtgccatca-ttttttccatcttttacatttactagat-tggtgttcagtacagg-----atgaactactcagtaagtttctttcttatc--tctcct
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3425559 136 +   7543664 gtattggatggttaagttcattgaagactttgacaatttacaagatagtgccatca-ttttttccatcttttacatttactagat-ttgtgttcagtacagg-----atgaactacccagtaagtttctttcttatc--tctcct
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26470826 138 +  50472720 GTATTGCATGC-TAAGTTCATTCAAGACTTAGACAATTTACAAGCTTGTGCCATCA-TTTTTTCCATCTTTTACACTTACTAGATCTTATGTTCAATAAAGG-----ATAAACTACTCACTAAGTTTTCGTCTTACCTGTCTTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8662784 142 +  13128814 gtattgcatgg-taagttcattcaagacttagacaatttacaggattgtgccatcatttttttccatcttttacacttactagatcttatgttcaataaagggttcaataaactactcactaagtttctgtcttagc--tctttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13889946 136 -  14377064 gtattgcatgg-taagttcattcaagacttagacaatttacaagattgtgccatca-ttttttccatcttttacacttactagatcttatgttcaataaagg-----ataaactactcactaagtttctgtcttctc--tctctt
i cebCap1.NW_016107322v1    C 0 I 4
s aotNan1.NW_018487195v1      9124428 136 -   9889416 gtattgcatgg-taagttcgttcaagacttagacaatttatgagattgtgccatga-ttttttccgtctttcacacttactagatcttatgttcaataaagg-----ataaactactcactaagtttctgtcttatc--tctctt
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2314155 5039 +   3081153 I
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5205387   0 -  13750039 C
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=58724.000000
s hg38.chr21_GL383579v2_alt     67942 19 +    201197 gagcttgtgtgaagccttt
s panTro5.chr21               8690341 19 +  33445071 gagcttgtgtgaagccttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22225856 19 +  46275980 gagcttgtgtgaagccttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208366 19 -  13858734 gagcttgtgtgaagccttt
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160637238 19 - 185818997 gagcttgtgtgaagccttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167274212 19 - 192294377 gagcttgtgtgaagccttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4898089 19 -  30496662 gagcttgtgtgaagccttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13421208 19 +  21915920 gagcttgtgtgaagccttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19923034 19 -  90373283 gagcttgtgtgaaaccttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3425695 19 +   7543664 gagcttgtgtgaagccttt
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26470964  2 +  50472720 ----------GA-------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8662926  2 +  13128814 ----------ga-------
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9124564  4 -   9889416 --------ttga-------
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2314155 5039 +   3081153 I
e cebCap1.NW_016107322v1     13890082  4 -  14377064 I
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5205387  0 -  13750039 C
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=3446567.000000
s hg38.chr21_GL383579v2_alt     67961 520 +    201197  
s panTro5.chr21               8690360 520 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22225875 520 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208385 520 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160637257 519 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167274231 519 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4898108 510 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13421227 513 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19923053 513 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3425714 510 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26470966 528 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8662928 538 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13890086 528 -  14377064  
i cebCap1.NW_016107322v1    I 4 C 0
s aotNan1.NW_018487195v1      9124568 527 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2314155 5039 +   3081153 I
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5205387   0 -  13750039 C
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=290851.000000
s hg38.chr21_GL383579v2_alt     68481 41 +    201197 CCATACTATAATTTTGTTGTATACATTTTTATTATCCTGTA
s panTro5.chr21               8690880 41 +  33445071 CCATACTATAATTTTGTTGTATACATTTTTATTATCCTGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22226395 41 +  46275980 CCATACTATAATTTTGTTGTATACATTTTTATTATCCTGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208905 41 -  13858734 CCATACTATAATTTTGTTGTATACATTTTTATTATCTTGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160637776 41 - 185818997 TCATACTAAAATTTTGTTGGATAAATTTTTATTATCCTGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167274750 41 - 192294377 TCATACTAAAATTTTGTTGGATAAATTTTTATTATCCTGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4898618 41 -  30496662 TCATACTAAAATTTTGTTGGATAAATTTTTATTATCCTGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13421740 41 +  21915920 TCATACTAAAATTTTGTTGGATAAATTTTTATTATCCTGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19923566 41 -  90373283 TCATACTAAAATTTTGTTGGATAAATTTTTATTATCCTGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3426224 41 +   7543664 TCATACTAAAATTTTGTTGGATAAATTTTTATTATCCTGTA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26471494 41 +  50472720 CCATACTATACTTTTGTTGGATAAATTTTTATTATGCTGTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8663466 41 +  13128814 CTGTACTATATTTTTGTTGGATACATTTTTATTATGCTGTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13890614 41 -  14377064 CCATACTATATTTTTGTTAGATAAATTTTTATTATGCTGTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9125095 41 -   9889416 CCATACTATGCTTTTGTTGGATAAATTTTTATTATGCTGTA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2319194 34 +   3081153 CCATCCTAGTATTTGGTT-------CTTGTTTTGACCAATA
i dasNov3.JH578070          I 5039 C 0
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5205387  0 -  13750039 C
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=3513243.000000
s hg38.chr21_GL383579v2_alt     68522 545 +    201197  
s panPan2.chr21              22226436 545 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8208946 545 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160637817 549 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167274791 549 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4898659 549 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13421781 548 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19923607 548 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3426265 548 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26471535 537 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8663507 544 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13890655 540 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9125136 535 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2319228 520 +   3081153  
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5205387   0 -  13750039 C
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=1799316.000000
s hg38.chr21_GL383579v2_alt     69067 240 +    201197 GAGTTTTGACACAAATCAGCATACTCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTACAGGGAAACTGCAA-GGACAGTTTAGTAACTCAGTAGTAGGCCTAAAGGTTAAGACAGG-GGTAAGTTACCTAAACTACATAAAGATATCTGCATGGTGAAAGCCTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGAACACGAATACAG-AAAA
s panPan2.chr21              22226981 235 +  46275980 GAGTTTTGACACAAATCAGCATACGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTACAGGGAAACTGCAA-GGACAGTTTAATAACTCAGCAGTAGGCCTAAAGGTTAAGACAGG-TG-----TACCTAAACTACATAAAGATATCTGGATGGTGAAAGCCTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGAACACGAATACAG-AAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8209491 240 -  13858734 GAGTTTTGACACAAATCAGCATAAGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTACAGGGAAACTGCAA-GGACAGTTCAGTAACTCAGCAGTAGGCCTAAAGGTTAAGACAGG-GGTAAGTTACCTAAACTACATAAAGATATCTGCATGGTGAAAGCCTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGAACACGAATACAG-AAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160638366 241 - 185818997 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTCCAGGGAAACTGCAA-GGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTACATAAAGATACCTGCCTGGTGACAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGATCATGAATACAGAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167275340 241 - 192294377 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTCCAGGGAAACTGCAA-GGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTACATAAAGATACCTGCCTGGTGACAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGATCATGAATACAGAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4899208 241 -  30496662 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTCCAGGGAAACTGCAA-GGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTACATAAAGATACCTGCCTGGTGACAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGATCATGAATACAGAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13422329 241 +  21915920 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTACAGGGAAACTGCAA-GGGCAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTACATAAAGATAGCTGCATGGTGACAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGATCATTAATACAGAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19924155 241 -  90373283 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTACAGGGAAACTGCAA-GGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTACATAAAGATACCTACATGGTGAGAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGATCATGAATACAGAAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3426813 241 +   7543664 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----ATTAAGATAATAGCAGAGTCCAGGGAAACTGCAA-GGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTACATAAAGATACCTGCATGGTGAGAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGGATCATGAATACAGAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5205387 241 -  13750039 GAGTTTTGACACAAATCAGCATATGCAAACTGAGTAACCTGAGAATCA-TTAATAAAAGGGG-----GTTAAGATAATAGCAGAGTACAGGGAAACTGCAA-GGGCAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGCAGG-GGTAAGTTACCTAAACTATATAAAGATACCTGCATGGTGAGAGCTTTCTGTCTGGAATTCTGAATTTTCATGGAGAGAGCCAGTATCATGAATACATAAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26472072 240 +  50472720 GAGTTCTGACACAAATTGACATATGCAAATT-AGTTAACTGAGAATAA-TTAATAAAAGTGG-----ATTAAGATAATGACAGACTGCAGGGGAACTACAAGGGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAGGGTAAGAGGTAAGTTACCTAAACTAGATAAAGATACCTGCATGGTGAAAGCCTTCTGTTCAGAATTCTGAATTTTCATGGAGATAACCAAAAACATGAATAT-G-AAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8664051 239 +  13128814 GAGTTCTGACACAAACCAACATATGAAAGTTGATTTAAC--AGAATAA-TTAATAAAAGGGG-----ATTAAGATAATTACAGATTGCAGGGAAACTACAAGGGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGTAGGAGGTAAGTTACCTAAACTAGATAAAGAT-CCTGCATGGTGAAAGCCTTCTGTTCAGAATTCTGAATTTTCATGGAGATAAACAAAAACATGAATATGG-AAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13891195 242 -  14377064 GAGTTCTGACATAAATCAACATATGCAAATTGAGTTAACTGAGAATAA-TTAATAAAAGGGA-----ATTAAGATAATGACAGACTGCAGGGAAACTACAAGGGACAGTTTAGTAACTCAGCAGTAGGCCTAAAGGTTAAGGTAGGAGGTAAGTTACCTAAACTAGATAAAGATACCTGCATGGTGAAAGCCTTCTGTTCAGAATTCTGAATTTTCATGGAGATAACCAAAAACATGAATATGG-AAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9125671 242 -   9889416 GAGTTCTGACACAAATCAACGTATGCAAATTGAGTTAACTGAGAATAA-TTAATAAAAGGGG-----ATTAAGATAATGACAGACTGCAGGGAAACTACAAGGGACAGTTCAGTAAGTCAGCAGTAGGCCTAAATGTTAAGGTGGGAGGTAAGTTACCTAAACTAGATAAAGATACCTGCATGGTGAAAGCCTTCTGTTCAGAATTCTGATTTTTCATGGAGATAACCAAAAACATGAATATGG-AAAA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2319748 245 +   3081153 GAGTTCTGGCAGGAAGCTGTACAATCTAATTAAGTAATATGAGGATAATTTAATAAATAGAATATTTATGAAGATGAGGACAGATTTCAGGAAAACTCCAAGGGAGAGTTT--TCCCCCAGTGATAGTCCTGAAGATCAATGGAGG-GAGTCATTACTTAAACTGGAGAAGCACTGCTGCACAGTGAGTGCCTCTTGTCAGGAATTCTGATTCCTAATGGAAAGCATCAGGAGAATGATTAAAC-ACAA
i dasNov3.JH578070          C 0 I 1443
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=5803598.000000
s hg38.chr21_GL383579v2_alt     69307 836 +    201197  
s panPan2.chr21              22227216 834 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8209731 836 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160638607 863 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167275581 863 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4899449 853 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13422570 848 +  21915920  
i cerAty1.NW_012002954v1    C 0 I 325
s chlSab2.chr2               19924396 864 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3427054 859 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5205628 846 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26472312 921 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8664290 844 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13891437 874 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9125913 853 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2319993 1443 +   3081153 I
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=2868757.000000
s hg38.chr21_GL383579v2_alt     70143 431 +    201197 agaacacgtttagttttacaagacactttcaaaatgtcttcaaaggt---agccgtatcattttgtatacccaccatcaataattgagagttcttgttgcttcacatcccgatcagcaattagtgttttcagtgttttggattttagtcattctaatagatgtgtagtggtatcttg------tttgt--ttgtt------tttctttaatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatgtcttgtttggtgaggtgactgttcaga-gtgtttgctcatttattaattagtctcgtc---------t-ttttttattgttaagag------------ggtttttcttttgtatattttgaatagcagtcctttaacagatgtgtc-tttttcaaatatttttttttcccagattgtggcttgtcttactctcttga
s panPan2.chr21              22228050 428 +  46275980 agaacacgtttagttttacaagacactttcaaaatgtcttcaaaggt---agctgtatcattttgtattcccaccatcaataattgagagttcttgttgcttcacatcccgatcagcaattagtgttttcagtgttttggattttagtcattctaatagatgtgtagtggtatcttg------tttgt--ttgtt------tttctttaatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatgtcttgtttggtgaggtgactgttcaga-gtgtttgctcatttattaattagtctcttc---------t-ttttttattgttaagag------------ggttttt-tttggtatattttgaatagcagtcctttaacagatgtgtc-tttttcaaata--tttttttcccagattgtggcttgtcttactctcttga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8210567 429 -  13858734 ggaacacgtttagtttcacaagacactttcaaaatgtcttcaaaggt---agctgtatcattttgtgtttccaccatcattaattgagagttcttgttgcttcacatcctgatcagcaatcagtgttttcagtgttttggattttagtcattctaatagatgtgtagtggtatcttg------tttgt--ttgtt------tttctttaatttgaaattccctaatgccatattatgttaggcatagtttcatatgtttacttgtgatctgtatgttttgtttggtgaggtgactgttcaga-gtgtttgctcatttattaattagtctcttc---------t-tttgttattgttaagag------------ggttttttttttgtatattttgaatagcagtcctttaacagatgtgtc-tttttcaaata--tttttttcccagattgtggcttgtcttactctcttga
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160639470 444 - 185818997 agaacatgtttagctttataagacattttcaaaatgtcttcaaaggt---agctggatcattttgtactcccaccatcaataattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagtgtttcagattttgttcattctaatagatgtgtagtggtatcttg------ttttt--ttgtg-tttt-tttttt-aatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatatcttgtttagtgaggagattgttcagg-ttatttgctcctttattaattaggctgttc---------t-ctttttattgttaagagtttttttgttttttgtttttttttgtatattttgaatagcagtcctttaacagatgtgtcgtttttcaaata---ttttttcccagattgtggcttgtcttactctcttga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167276444 446 - 192294377 agaacatgtttagctttataagacattttcaaaatgtcttcaaaggt---agctggatcattttgtactcccaccatcaataattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagtgtttcagattttgttcattctaatagatgtgtagtggtatcttg------ttttt--ttgtgttttt-ttttttaaatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatatcttgtttagtgaggagattgttcagg-ttatttgctcctttattaattaggctgttc---------t-ctttttattgttaagagttttttttttttttttttttttttgtatattttgaatagcagtcctttaacagatgtgtcgtttttcaaata---ttttttcccagattgtggcttgtcttactctcttga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4900302 445 -  30496662 agaacatgtttagctttataagacattttcaaaatgtcttcaaaggt---agctggatcattttgtactcccaccatcaataattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagtgtttcagattttgttcattctaatagatgtgtagtggtatcttg------ttttt--ttgtg-tttt-ttttttaaatttgaaattccctaatgccatattatgttaagcatattttcatatgtttacttgtgatctgtatatcttgtttagtgaggagattgttcagg-ttatttgctcctttatttattaggctgttc---------t-ctttttattgttaagaggttttttttttttttttttttttggtatattttgaatagcagtcctttaacagatgtgtcgtttttcaaata---ttttttcccagattgtggcttgtcttactctcttga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13423743 434 +  21915920 agaacatgtttagctttataagacattttcaaaatgtcttcaaaggt---agctggatcattttgtactcccaccatcaataattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagtgtttcagattttgttcattctaatagatgtgtagtggtatcttg------ttttt--ttgtg--ttt-ttttttaaatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatatcttgtttagtgaggagattgttcagg-ttatttgctcctttattaattaggctgttc---------t-ttttttattgttaagag----------ttttttttttttttgtatattttgaatagcaatcctttaacagatgtgtcatttttcaaata---ttttttcccagattgtggcttgtcttactctcttga
i cerAty1.NW_012002954v1    I 325 C 0
s chlSab2.chr2               19925260 448 -  90373283 agaacatgtttagctttataagacactttcaaaatgtcttcaaaggt---agctggatcattttgtactcccaccatcaataattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagagtttcagattttgctaattctaatagatgtgtactggtatcttg------ttttttgttttg-ttttgtttttttaatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatatcttgtttggtgaggagactgttcagg-ttatttgctcatttattaattagcctgttc---------t-ttttttattgttaagaggtttttttgttttgttttgtttttgtatattttgaatagcagtcctttaacagatgtgccatttttcaaata---ttttttcccagattgtggcttttcttactctcttga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3427913 443 +   7543664 agaacatgtttagctttataagacattttcaaaatgtcttcaaaggt---agctggatcattttgtactcccaccatcaataattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagtgtttcagattttgttcattctaatagatgtgtagtgatatcttg------ttttt--ttgtg-tttt-tttttttaatttgaaattccctaatgccatattatgttaagcatagtttcatatgtttacttgtgatctgtatatcttgtttagtgaggagattgttcagg-ttatttgctcctttattaattaggctgttc---------t-ctttttattgttaagag--tttttttttgttttttttttttgtatattttgaatagcagtcctttaacagatgtgtcgtttttcaaata---ttttttcccagattgtggcttgtcttactctcttga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5206474 437 -  13750039 agaacatgtttagctttgtaagacactttcaaaatgtcttcaaaggt---agctggatcattttgtattcccaccaccaacaattgagagttcttgttgcttcacatcctgatcaacaattagtgttttcagtgtttcggattttggtcattctaatagatgtgtagtgggatcttgttgtttttttt--ttttc-tttt-tttttttaatttgaaattccctaataccatactatgttaagcatagtttcatatgtttacctgtgatctgtgtatcttgtgtgctgaggagactgttcaga-tgacttgctcatttattaattaggctgttc---------tattttttagtgttaaatg---------------gttttttctgtatattttgaaaagcagtcctttaacagatgtgtc-tttttcaaata--cttttttcccagatcgtggcttgtcttactttcttga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26473233 423 +  50472720 agaacatgtttatttttataagatacttttaaaatatcttcaaaggt---agctgtatcattttgtattcccactgtcaatgattgagagttcttgttgcttcacatcctcctcagtccttagtgttttcagtgttttgga-tttggtcattctaatagttgtgtagtggtatcttg------tttat--t----------tcttttaaatttgaaattccctaatgccatattatgttaagcatagtttaatgtgtttacgtgtgatctgcatatcttgtttggggaggtgactattcagatttttttgctcatttattaattaggctgttcatttat-----ttttttattgttaggag-----------------tcattttgtatattttgaatagcagtcctttgacagatgtgtc-tttttcaagta----tttttcctagtttgttgcttgtcttattctcttga
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8665134 422 +  13128814 agaacgtgtttagttttataagatacttttaaaatgtcttcaaaggt---agccgtatcattttgtattcccaccatcaatgattgagagttcctgttgcttcacatcctcatcaatacttagtgttttcagtgttttgga-tttggtcattctaatagttgtgtagtggtatcttg------tttat--t----------tctttcaaatttgaaattccctaatgtcatattatgttaagcatagtttaatatgtttacatgtgatctgcatatcttgtttggtgaggtgactgttcaga-ttttttgctcatttgttagttaggctgttcatttat---c-tttttcattgtt--gag-----------------tcgttttgtaaattttgaatatcagttctttaaaaaatgtgtc-tttttcaaata---ttttttcccagtttgttgcttgtcttattctcttga
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13892311 426 -  14377064 agaacatgtttagttttataagatacttttaaaatgtcttcaaaggtagcagccgcatcattttgtattcccaccgtcaatgattgagagttcctgttgcttcacattctcatcagtacttagcgttttcagtgttttgga-tttggtcatcctaatagttgtgtagtggtatcttg------tttat--t----------tcttttaaatttgaaattccctaatgccatattatgttaagcatagtttaatatgtttacatgtaatctgcatatcttgtttggtgaggtgactgttcaga-ttttttgctcatttattaattaggctgttcattgat-ttt-ttttttattgtt--gag-----------------ttgttttgtatattttgaatagcagtcctttaacaggtgtgtc-tttttcaaata----ttttccccagtttgttgcttgtcttattgtcttga
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9126766 426 -   9889416 agaacatgtttagttttataagatacttttaaaatgtcttcagaggt---agccgtatcattttgtattctcaccttcaataattgagagttcgtgttgcttcacatcctcatcagtacttagtgttttcagtgttttgga-tttggtcattctaatagttgtgtagtggtatcttg------tttat--t----------tcttttaaatttgaaattccctaataccatattatgttaagcatagtttaatatgtttacatatgatctgcatatcttgtttggtgaggtgactgttcaga-ttttttgctcatttatttattaggctgttcattttttttt-tttttaattgttaagag-----------------ttgttttgtatattttgaatagcagtcctttaacagatgtgtc-tttttcaaata----tttttcccagtttgttgcttgtcttattctcttga
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2319993 1443 +   3081153 I
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=142872.000000
s hg38.chr21_GL383579v2_alt     70574 22 +    201197 GAAATGTTGTTTCTAAAATTTC
s panPan2.chr21              22228478 22 +  46275980 GAAATGTTGTTTCTAAAATTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8210996 22 -  13858734 GAAATGTTGTTTCTAAAATTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160639914 22 - 185818997 GAAATGTTGTTTTTAAAATTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167276890 22 - 192294377 GAAATGTTGTTTTTAAAATTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4900747 22 -  30496662 GAAATGTTGTTTTTAAAATTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13424177 22 +  21915920 GAAATGTTGTTTTTAAAATTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19925708 22 -  90373283 GAAATGTTATTTTTAAAATTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3428356 22 +   7543664 GAAATGTTGTTTTTAAAATTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5206911 22 -  13750039 GAAATGTTGTTTTTAAAATTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26473656 19 +  50472720 GAAATGTTAT---TAAAATTTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8665556 19 +  13128814 GAAATGCTAT---TAAAATTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13892737 19 -  14377064 GAAATGTTAT---TAAAATTTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9127192 19 -   9889416 gaaatgtcAT---TAAAATTTA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2321436 18 +   3081153 GAAATGTTACTTT----ATTTA
i dasNov3.JH578070          I 1443 C 0
e canFam3.chr31              18009504 3308 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921  0 +  33445071 C

a score=3093585.000000
s hg38.chr21_GL383579v2_alt     70596 438 +    201197  
s panPan2.chr21              22228500 461 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8211018 480 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160639936 463 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167276912 463 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4900769 437 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13424199 445 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19925730 438 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3428378 438 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5206933 446 -  13750039  
i colAng1.NW_012120598v1    C 0 I 20
s calJac3.chr21              26473675 417 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8665575 427 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13892756 430 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9127211 432 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18012812 423 +  39895921  
i canFam3.chr31             I 3308 C 0
s dasNov3.JH578070            2321454 448 +   3081153  
i dasNov3.JH578070          C 0 C 0
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=21374.000000
s hg38.chr21_GL383579v2_alt     71034 6 +    201197 TATGTT
s panPan2.chr21              22228961 6 +  46275980 TATGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8211498 6 -  13858734 TATGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160640399 6 - 185818997 TGTATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167277375 6 - 192294377 TGTATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4901206 6 -  30496662 TGTATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13424644 6 +  21915920 TGTGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19926168 6 -  90373283 TGTGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3428816 2 +   7543664 TG----
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26474092 4 +  50472720 --TATT
i calJac3.chr21             C 0 I 2
s saiBol1.JH378168            8666002 4 +  13128814 --TATT
i saiBol1.JH378168          C 0 I 2
s cebCap1.NW_016107322v1     13893186 4 -  14377064 --TATT
i cebCap1.NW_016107322v1    C 0 I 2
s aotNan1.NW_018487195v1      9127643 4 -   9889416 --TATT
i aotNan1.NW_018487195v1    C 0 I 2
s canFam3.chr31              18013235 4 +  39895921 --TATT
i canFam3.chr31             C 0 I 3
s dasNov3.JH578070            2321902 4 +   3081153 --TGTT
i dasNov3.JH578070          C 0 C 0
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5207379 20 -  13750039 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921 0 +  33445071 C

a score=1558372.000000
s hg38.chr21_GL383579v2_alt     71040 186 +    201197 TGGAGGCATGAAAACATTTATTTGTAAGCAAATATATGCAAGAATAA--TTTTGTGACGTTTAACTACCTTCGTGTT--------CAATAAACCACAGCAATTACTCCATCACAAGATTTAATAATTATAGTACAAG-TTAAAGGTTCTGTATGGTTAATTAACCACTAAATGAATAATAGCATTTT-T--TAAAAATTT
s panPan2.chr21              22228967 194 +  46275980 AGGAGGCATGAAAACATTTATTTATAAGCAAATATATGCAAGAATAA--TTTTGTGACGTTTAACTACCTTCGTGTTCAATAAACCAATAAACCATAGCAATTACTCCATCATAAGATTTAATAATTATAGTACAAG-TTAAAGGTTCTGTATGGTTAATTAACCACTAAATGAATAATAGCCTTTT-T--TAAAAATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8211504 185 -  13858734 TGGAGGCATGAAAACATTTATTTGTAAGCAAATATATGCAAGAATAA--TTTTGTGACGTTTACCTACCTTCGTGTT--------TAATAAACCATAGCAATTACTCCATCATAAGATTTAATAATTATAGTACAAG-TTAAAGGTTCTGTATGGTTAATTAACCACTAAATGAATAA-AGCATTTT-T--TAAAAATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160640405 186 - 185818997 TGGAGGCATGAAAATATTTATTTGTAAGCAAATACATGCAAGAATAA--TTTAGTGACATTTAGCTACCTTCCCGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-CCAAAGGTTCTGTATGGTCAATTAAACACTAAATGAATAATAGCATTTT-T--AAAAAGTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167277381 186 - 192294377 TGGAGGCATGAAAATATTTATTTGTAAGCAAATACATGCAAGAATAA--TTTAGTGACATTTAGCTACCTTCGCGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-CCAAAGGTTCTGTATGGTCAATTAAACACTAAATGAATAATAGCATTTT-T--AAAAAGTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4901212 186 -  30496662 TGGAGGCATGAAAATATTTATTTGTAAGCAAATACATGCAAGAATAA--TTTAGTGACATTTAGCTACCTTCGCGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-CCAAAGGTTCTGTATGGTCAATTAAACACTAAATGAATAATAGCATTTT-T--AAAAAGTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13424650 186 +  21915920 TGGAGGCATGAAAATATTTATTTGTAAGCAAATACATGCAAGAATAA--TTTAGTGACATTTAGCTACCTTCGCGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-CCAAAGGTTCTGTATGGTCAATTAAACACTAAATGAATAATAGCATTTT-T--AAAAAGTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19926174 187 -  90373283 TGGAGGCATGAAAATATTTATTTGTAAGCAAATACATGCAAGAATAA--TTTAGTGACATTTAGCTACCTTCGCGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-CCAAAGGTTCTGTATGGTCAATTAAACACTAAATGAATAATAGCATTTTAA--AAAAAGTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3428818 186 +   7543664 TGGAGGCATGAAAATATTTATTTGTAAGCAAATGCATGCAAGAATAA--TTTAGTGACATTTAGCTACCTTCGCGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-CCAAAGGTTCTGTATGGTCAATTAAACACTAAATGAATAATAGCATTTT-T--AAAAAGTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5207399 188 -  13750039 TGGAGGCATGAAAATATTTATTTGTAAGGAAATACATGCAAGAATAA--TTTTGTGACATTTAGCTACCTTCGAGTT--------CAATAAACCATAGCAATTACTCCATCACAAGATTTAATAACTATAGTACAAG-TCAAAGGTTCTATACGGTTAATTAACCACTAAAAGAATAATAGCATTTT-TAAAAAAAATTT
i colAng1.NW_012120598v1    I 20 C 0
s calJac3.chr21              26474098 187 +  50472720 TGGAAGCATGAAAATATTTATTCATAAGCAAATACATGCAAGAATAA-TTTTTGTAACATTTAACCATCTTTGTGTT--------CAATAAACCATAGCAATTGCTCCATCACAAGATTTAATAACTATAGCACAAG-TTAAAGGTTCTGTATGTTTAATTAACCACTAAATAAATAACAGCATTTT-A--AAAAAATTT
i calJac3.chr21             I 2 C 0
s saiBol1.JH378168            8666008 187 +  13128814 TGGAAGCATGAAAATATTTATTCATAAGCAAATACATGCAAGAATAA-TTTTTGTGACATTTAACCACCCTTGTGTT--------CAATAAACCATAGCAATTGCTCCATCACAAGATTTAATAAGGATAGCACAAG-CTAAAGTTTCTGTATGGTTAATTAACCACTAAATGAATAATATCATTTA-A--AAAAAATTT
i saiBol1.JH378168          I 2 C 0
s cebCap1.NW_016107322v1     13893192 187 -  14377064 TGGAAGCATGAAAATATTTATTCATAAGCAAATACATGAAAGAATAA-TTTTTGTGGCATTTAACCACCTTTGTGTT--------CAATAAACCATAGCGATTGCTCCATCACAAGACTTAATAACTATAGCACAAG-TTAAAGTTTCTGTATGGTTAATTAACCACTAAATGAATAATAGCATTTT-A--AAAAAATTT
i cebCap1.NW_016107322v1    I 2 C 0
s aotNan1.NW_018487195v1      9127649 187 -   9889416 TGGAAGCATGAAAATATTTATTCATAAGCAAATACATGCAAGAATAA-TTTTTGTGACATTTAACCACCTTTATGTT--------CAATAAACCATAGCAATTGCTCTATCACAAGATTTAATAACTATAGCACAAG-CTAAAGGTTCTGTATGGTTAATTAACCACTAAATGAATAACAGCATTTT-T--TAAAAATTT
i aotNan1.NW_018487195v1    I 2 C 0
s canFam3.chr31              18013242 184 +  39895921 TGGA-GCAT-AAAATATTTATTTGTAAGCAAATACTTGCAAGAATTA---TGTGTGGCATTTAACTATCTCCATGTG--------CAATAACCCATAGCAATTATTCCATCAGGACGTTCAATAACTACAGTAAAAGAATAAAAGTCCTATATAGTTAACTGACTGCTAGATTAGTGATAACCTTTG-T--CAAAAATTA
i canFam3.chr31             I 3 C 0
s dasNov3.JH578070            2321906 189 +   3081153 ATGAAGCATGAACATATTTATGTTTATGCAAATACATGCAAGAATAAATTGCATTGACATTTAACCACATTTGTGTG--------TAATAACCCATACCAGTTATTCCATCTCTACATTCAGTGCATATTGTAGAAG-ATAGAGCTCTTCAATTGTTAACAGTCTACTAAATTAGTATTGTTCTTTGGT--CAAAAATCT
i dasNov3.JH578070          C 0 I 4498
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=3619304.000000
s hg38.chr21_GL383579v2_alt     71226 513 +    201197  
s panPan2.chr21              22229161 512 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8211689 514 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160640591 511 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167277567 511 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4901398 511 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13424836 511 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19926361 497 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3429004 511 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5207587 512 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26474285 515 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8666195 514 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13893379 515 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9127836 515 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18013426 421 +  39895921  
i canFam3.chr31             C 0 I 5166
e dasNov3.JH578070            2322095 4498 +   3081153 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=3316510.000000
s hg38.chr21_GL383579v2_alt     71739 478 +    201197 tatagtttgtatgttcttaccctccaaatgttgaaatgggttcaccaatgttggacgtgggcctagtgggtggtttttgtgtcatgagagcagatccctcatgagtggcttggtcttaccattgtaattggtcccaccattgtaatgagttcccatgagatctggttgtt--aaaaagtc-tggagacctccctcttctctctcttgcttcctctcccaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaagcttcctgaggcctcacctgaagctgaagacatgcttgtgccatggttatacagcctgcagaatcatgagccaaataaacccgtttg-gctatgaatttcccagcttcatgtattcctttatagcaacacaaaatggactaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgagg
s panPan2.chr21              22229673 478 +  46275980 tatagtttggatgttcttaccctccaaatgttgaaatgggttcaccaatgttggacatgggcctagtgggtggtgtttgtgtcatgagagcagatccctcatgagtggcttggtcttaccattgtaattgctcccaccattgtaatgagttcacatgagatctggttgtt--aaaaagtc-tggagacctccctcttctctctcttgcttcctctcccaccatgtatcatgcctgctccccttcagattgtgtcatgagtaaaagcttcctgaggcctcacctgaagctgaagacatgcttgtgccatggttatacagcctgcagaatcatgagccaaataaacccgtttg-gctatgaatttcccagcttcatgtattcctttatagcaacacaaaatggactaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8212203 478 -  13858734 tatagtttgaatgttcttaccctccaaatgttgaaatgggttcaccaatgttggacgtgggcctagtgggtggtgtttgtgtcatgagagcagatccctcatgagtggcttggtcttaccattgtaattggtcccaccactgtaatgagttcacatgagatctggttgtt--aaaaagtc-tggagacctccctcttctctctcttgcttcctctcccaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaagcttcctgaggcctcacctgaagctgaagacatgcttgtgccatggttatacagcctgcagaatcatgagccaaataaacccgtttg-gctatgaatttcccagcttcatgtattcctttatagcaacacaaaatggactaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgaga
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160641102 462 - 185818997 tatagtttggatgttcttaccgtccaaatgttgaaatgggttaaccagtgttggaagtgggtctagtggatggtgtttgtgtcatgagagcagatccctcatgagtggcttggt-----------------gcccaccattgtaatgagttcacatgagatctggttgtt--aaagagtc-tggagacttccctcttctctctcttgcttctcctctcaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaaccttcctgaggcctcaccagaagctgaagagatgcttgtgtcatggttgtatggcctgcagaatcatgagccaaataaacccattttccctatgaatttcccagctttaggtattcctttacagcaacacaaaatggattaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgaga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167278078 462 - 192294377 tatagtttggatgttcttaccgtccaaatgttgaaatgggttaaccagtgttggaagtgggtctagtggatggtgtttgtgtcatgagagcagatccctcatgagtggcttggt-----------------gcccaccattgtaatgagttcacatgagatctggttgtt--aaagagtc-tggagacttccctcttctctctcttgcttcccctctcaccatgtatcatgcttgctccccttcatattgtgtcatgagtaaaaccttcctgaggcctcaccagaagctgaagagatgcttgtgtcatggttgtatggcctgcagaatcatgagccaaataaacccattttccctatgaatttcccagctttaggtattcctttacagcaacacaaaatggattaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgaga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4901909 462 -  30496662 tatagtttggatgttcttaccgtccaaatgttgaaatgggttaaccagtgttggaagtgggtctagtggatggtgtttgtgtcatgagagcagatccctcatgagtggcttggt-----------------gcccaccattgtaatgagttcacatgagatctggttgtt--aaagagtc-tggagacttccctcttctctctcttgcttctcctctcaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaaccttcctgaggcctcaccagaagctgaagagatgcttgtgtcatggttgtatggcctgcagaatcatgagccaaataaacccattttccctatgaatttcccagctttaggtattcctttacagcaacacaaaatggattaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgaga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13425347 462 +  21915920 tatagtttggatgttcttaccgtccaaatgttgaaatgggttaaccagtgttggaagtgggtctagtggatggtgtttgtgtcatgagagcagatccctcatgagtgtcttggt-----------------gcccaccattgtaatgagttcacatgagatctggttgtt--aaagagtc-tggagacttccctcttctctctcttgcttcccctctcaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaagcttcctgaggcctcaccagaaactgaagagatgcttgtgtcatggttgtatggcctgcagaatcatgagccaaataaacccattttccctatgaatttcccagctttaggtattcctttacagcaacacaaaatggattaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgccaaccttgaga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19926858 448 -  90373283 --------------TCTTAccgtccaaatgttgaaatgggttaaccagtgttggaagtgggtctagtggatggtgtttgtgtcatgagagcagatccctcatgagtggcttggt-----------------gcccaccattgtaatgagttcacatgagatctggttgtt--aaagagtt-tggagacttccctcttttctctcttgcttcccctctcaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaagcttcctgaggcctcaccagaagctgaagagatgcttgtgtcatggttatatggcctgcagaatcatgagtcaaataaatccattttccctatgaatttcccagctttaggtattcctttacagcaacacaaaatggattaatacagctactacatgcgatggttgtttatcagtctaaaattcactgatctattggcagcatctgcaaaccttgaga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3429515 462 +   7543664 tatagtttggatgttcttaccgtccaaatgttgaaatgggttaaccagtgttggaagtgggtctagtggatggtgtttgtgtcatgagagcagatccctcatgagtgtcttggt-----------------gcccaccattgtaatgagttcacatgagatctggttgtt--aaagagtc-tggagacttccctcttctctctcttgcttcccctctcaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaagcttcctgaggcctcaccagaagctgaagagatgcttgtgtcatggttgtatggcctgcagaatcatgagccaaataaacccattttccctatgaatttcccagctttaggtattcctttacagcaacacaaaatggattaatacagctactacatgtgatggttgtttatcagtctaaaattcactgacctattgacagcatctgcaaaccttgaga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5208099 464 -  13750039 tatagtttggatgctcttacgctccaaatgttgaaatgggttcaccaatattggaagtgggcctagtggatggtgtttgtgtcatgagagcagatccgtcatgagtggcttggt-----------------gcccaccattgtaatgagttcacatgagatcaggttgttaaaaagagtc-tggagatcgccctcttccctctcttgcttcctctctcaccatgtatcatgcctgctccccttcatattgtgtcatgagtaaaagcttcctgaggcctcaccagaagctgaggagatgcttgtgtcatggttgtatggcctgcagaatcatgagccaaataaacccattttccctacgaatttcccagcttcaggtattcctttacagcaacacaaaatggattaatacagttactacatgtgatggttgtttatccgtctaaaatttactaacctattgacagcatctgcaaaccttgaga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26474800 463 +  50472720 gagagtttggatgtttgtaatctctaagtgttgaaatgatatcaacaatgttggaagtgggcctagtgggagatgtttgtatcatgagggcagatctctcatgagtggctttgt-----------------gcctatcattgtaatgaattcacatgagatctgattgtt--aaaaagtcttggagacctccctcttttctctcttgcttcctctctcacaatgtatcatgcccactctccttcatattctatcatgagtagaagcttcctgaggactcaccagaagctgaagagatgcttgtgccatacttgtacggcctgcagaaccttgagccaaataaacccattttctatatgaattaccccgttgtaggtattcctttttagcaacacaaaatagactagcacagctactacatgtgatggttgtttatcaatctgcaattcactgacctattgacagtatctgcaaaccatgaga
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8666709 462 +  13128814 gagagttcgaatgtttgtcatctccaagtgttgaaatggtatcaacaacgttggaagtgggcctagtgggagatgtttgtgtcatgagggcagatctctcatgaatggcttggt-----------------acctatcattgtaatgaattcacatgagatctggttgtt--aaaaagtc-tggagacctccctcttttctctcttgcttcctctctcaccatgtatcatgcccgctctccttcatattctgtcatgcatagaagcttcctgaggactcaccagaagctgaagagatgcttgtgccatagatgtacagactgcagaatcttcagtcaaataaaccaatgttctatattaattaccccgctttagatattcctttatagcaacacaaaatggacttacacagctactacatgcaatggttgtttatcaatctgcaattcactgacctattgacagtatctgcaaaccatggga
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13893894 462 -  14377064 gagagtttggatatttgtaatctccaagtgttgaaatggtatcaacaatgttggaagcgggcctagtgggagatgtttgtgtcatgagggcagatctcttgtgagtggcttggt-----------------gcctatcattgtaatgaattcacatgagatctggttgtt--aaaaagcc-tggagacctccctcttttctctcttgcttcctctctcaccatgtatcacgcccgctctccttcctattctgtcatgcgtagaagcttcctgaggactcaccagaagctaaagagatgcttgtgccgtagatgtacagcctgcagaatcttcaaccaaataaaccaattttctgtatgaattacccagcttcaggcattcctttatagcaacacaaaatgggcttacacagctactacatgtgatggttgtttatcaatctgcaattcactgacctattgacagtatctgcaaaccatgaga
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9128351 462 -   9889416 GGGAGAttggatgtttgtaatctctgagtgttgaaatgatatcaacaatgttggaagtgggcctagtgggagacgtttgtgtcatgagggcagatctctcatgagtggcttggt-----------------gcctatcattgtaatgaattcacatgatatctggttgtt--aaaaagtc-tggagacctccctcttttctctcttgcttcctctctcaccataaatcatgctcgctctccttcatattctgtcatgagtagaagcttcctgaggactcaccagaagctgaagagatgcttgtgccatagttgtacagcttgcagaatcttgagccaaataaacccattttctatatgaattacccagttgtaggtattcctttatagtaacacaaaatcgactaacacagctactatatgtgatggttgtttatcaatctgcaattcactgacctattgacagtatctgcaaaccatgaga
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I
e canFam3.chr31              18013847 5166 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I
e panTro5.chr21               8690921   0 +  33445071 C

a score=5143684.000000
s hg38.chr21_GL383579v2_alt     72217 593 +    201197  
s panTro5.chr21               8690921 596 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22230151 596 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8212681 596 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160641564 597 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167278540 597 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4902371 597 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13425809 597 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19927306 596 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3429977 597 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5208563 597 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26475263 595 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8667171 596 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13894356 584 -  14377064  
i cebCap1.NW_016107322v1    C 0 I 2730
s aotNan1.NW_018487195v1      9128813 602 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I
e canFam3.chr31              18013847 5166 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=312087.000000
s hg38.chr21_GL383579v2_alt     72810 44 +    201197 cctggtcttaggaaaatggatcttgggggagaatttcccctttg
s panTro5.chr21               8691517 44 +  33445071 cctggtcttaggtaattggatcttgggggagaatttcccctttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22230747 44 +  46275980 cctggtcttaggtaattggatcttgggggagaatttcccctttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8213277 44 -  13858734 cctggtcttaggtaattggatcttgggggagaatttcccctttg
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160642161 44 - 185818997 cctggtctaaggtaattggatcttgggggagaatttcccctttg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167279137 44 - 192294377 cctggtctaaggtaattggatcttgggggagaatttcccctttg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4902968 44 -  30496662 cctggtctaaggtaattggatcttgggggagaatttcccctttg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13426406 44 +  21915920 cctggtctaaggtaattggatcttgggggagaatttcccctttg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19927902 44 -  90373283 cctggtctaaggtaattggatcttgggggagaatttcctctttg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3430574 44 +   7543664 cctggtctaaggtaattggatcttgggggagaatttcccctttg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5209160 44 -  13750039 cctgctctaaggtaattggatcttgggggagaatttcccctttg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26475858 44 +  50472720 tatggtggaaaacacttggatcttgggggagaatttcctctttg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8667767 44 +  13128814 tatggtggaaagtacttgcatcttgggggagaatttTCTCTTTG
i saiBol1.JH378168          C 0 I 2738
s aotNan1.NW_018487195v1      9129415 44 -   9889416 tatggtggaaagcacctggatcttgggggagaatttcctctttg
i aotNan1.NW_018487195v1    C 0 I 2658
e dasNov3.JH578070            2322095 4498 +   3081153 I
e cebCap1.NW_016107322v1     13894940 2730 -  14377064 I
e canFam3.chr31              18013847 5166 +  39895921 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=49593.000000
s hg38.chr21_GL383579v2_alt     72854 9 +    201197 ctattctca
s panTro5.chr21               8691561 9 +  33445071 ctattctca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22230791 9 +  46275980 ctattctca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8213321 9 -  13858734 ctattctca
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160642205 9 - 185818997 ctattctca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167279181 9 - 192294377 ctattctca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4903012 9 -  30496662 ctattctca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13426450 9 +  21915920 ctattctca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19927946 9 -  90373283 ctattctca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3430618 9 +   7543664 ctattctca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5209204 9 -  13750039 atattctca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26475902 7 +  50472720 --actctca
i calJac3.chr21             C 0 I 2816
e dasNov3.JH578070            2322095 4498 +   3081153 I
e cebCap1.NW_016107322v1     13894940 2730 -  14377064 I
e canFam3.chr31              18013847 5166 +  39895921 I
e aotNan1.NW_018487195v1      9129459 2658 -   9889416 I
e saiBol1.JH378168            8667811 2738 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=4296925.000000
s hg38.chr21_GL383579v2_alt     72863 920 +    201197  
s panTro5.chr21               8691570 920 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22230800 920 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8213330 919 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160642214 905 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167279190 904 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4903021 904 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13426459 907 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19927955 907 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3430627 907 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5209213 925 -  13750039  
i colAng1.NW_012120598v1    C 0 I 3889
e dasNov3.JH578070            2322095 4498 +   3081153 I
e cebCap1.NW_016107322v1     13894940 2730 -  14377064 I
e canFam3.chr31              18013847 5166 +  39895921 I
e aotNan1.NW_018487195v1      9129459 2658 -   9889416 I
e calJac3.chr21              26475909 2816 +  50472720 I
e saiBol1.JH378168            8667811 2738 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=7707432.000000
s hg38.chr21_GL383579v2_alt     73783 2023 +    201197  
s panTro5.chr21               8692490 2011 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22231720 2011 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8214249 2024 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160643119 2025 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167280094 2024 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4903925 2025 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13427366 2025 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19928862 2025 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3431534 2025 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I
e cebCap1.NW_016107322v1     13894940 2730 -  14377064 I
e canFam3.chr31              18013847 5166 +  39895921 I
e aotNan1.NW_018487195v1      9129459 2658 -   9889416 I
e calJac3.chr21              26475909 2816 +  50472720 I
e saiBol1.JH378168            8667811 2738 +  13128814 I
e otoGar3.GL873528           24836159 4059 -  38779656 I
e colAng1.NW_012120598v1      5210138 3889 -  13750039 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=5005.000000
s hg38.chr21_GL383579v2_alt     75806 1 +    201197 t
s panTro5.chr21               8694501 1 +  33445071 t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22233731 1 +  46275980 t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216273 1 -  13858734 t
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160645144 1 - 185818997 t
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167282118 1 - 192294377 t
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4905950 1 -  30496662 t
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13429391 1 +  21915920 t
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19930887 1 -  90373283 t
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3433559 1 +   7543664 t
i manLeu1.NW_012103476v1    C 0 C 0
s otoGar3.GL873528           24840218 1 -  38779656 T
i otoGar3.GL873528          I 4059 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I
e cebCap1.NW_016107322v1     13894940 2730 -  14377064 I
e canFam3.chr31              18013847 5166 +  39895921 I
e aotNan1.NW_018487195v1      9129459 2658 -   9889416 I
e calJac3.chr21              26475909 2816 +  50472720 I
e saiBol1.JH378168            8667811 2738 +  13128814 I
e colAng1.NW_012120598v1      5210138 3889 -  13750039 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=30350.000000
s hg38.chr21_GL383579v2_alt     75807 6 +    201197 tttccc
s panTro5.chr21               8694502 6 +  33445071 tttccc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22233732 6 +  46275980 tttccc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216274 6 -  13858734 tttccc
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160645145 6 - 185818997 tttccc
i rheMac8.chr3              C 0 I 7045
s macFas5.chr3              167282119 6 - 192294377 tttccc
i macFas5.chr3              C 0 I 7032
s macNem1.NW_012015021v1      4905951 6 -  30496662 tttccc
i macNem1.NW_012015021v1    C 0 I 7056
s cerAty1.NW_012002954v1     13429392 6 +  21915920 tttccc
i cerAty1.NW_012002954v1    C 0 I 8434
s chlSab2.chr2               19930888 6 -  90373283 tttccc
i chlSab2.chr2              C 0 I 8403
s manLeu1.NW_012103476v1      3433560 6 +   7543664 tttccc
i manLeu1.NW_012103476v1    C 0 I 8389
s otoGar3.GL873528           24840219 6 -  38779656 TTTCTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18019013 6 +  39895921 TTTTAA
i canFam3.chr31             I 5166 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I
e cebCap1.NW_016107322v1     13894940 2730 -  14377064 I
e aotNan1.NW_018487195v1      9129459 2658 -   9889416 I
e calJac3.chr21              26475909 2816 +  50472720 I
e saiBol1.JH378168            8667811 2738 +  13128814 I
e colAng1.NW_012120598v1      5210138 3889 -  13750039 I
e nomLeu3.chr25               9237074 8605 +  32716333 I

a score=294377.000000
s hg38.chr21_GL383579v2_alt     75813 25 +    201197 ATACCATTTCTGCAAAAATTTGTGG
s panTro5.chr21               8694508 25 +  33445071 ATACCATTTCTGCAAAAATTTGTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22233738 25 +  46275980 ATACCATTTCTGCAAAAATTTGTGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216280 25 -  13858734 ataacaTTTCTGCAAAAATTTGTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9245679 25 +  32716333 ATACCATTTCTGCAAAAATTTGTGG
i nomLeu3.chr25             I 8605 C 0
s rheMac8.chr3              160652196 25 - 185818997 ATACCATTTCTGCAAAAATTTGTGT
i rheMac8.chr3              I 7045 C 0
s macFas5.chr3              167289157 25 - 192294377 ATACCATTTCTGCAAAAATTTGTGT
i macFas5.chr3              I 7032 C 0
s macNem1.NW_012015021v1      4913013 25 -  30496662 ATACCATTTCTGCAAAAATTTGTGT
i macNem1.NW_012015021v1    I 7056 C 0
s cerAty1.NW_012002954v1     13437832 25 +  21915920 ATACCATTTCTGCAAAAATTTGTGG
i cerAty1.NW_012002954v1    I 8434 C 0
s chlSab2.chr2               19939297 25 -  90373283 ATACCATTTCTGCAAAAATTTGTGG
i chlSab2.chr2              I 8403 C 0
s manLeu1.NW_012103476v1      3441955 25 +   7543664 ATACCATTTCTGCAAAAATTTGTGG
i manLeu1.NW_012103476v1    I 8389 C 0
s colAng1.NW_012120598v1      5214027 25 -  13750039 ATACCATTTCTGCAAAAATTTGTGG
i colAng1.NW_012120598v1    I 3889 C 0
s calJac3.chr21              26478725 25 +  50472720 ATACCATTTCTGCAAAAATTTGTGG
i calJac3.chr21             I 2816 C 0
s saiBol1.JH378168            8670549 25 +  13128814 ATACCGTTTCTGCAAATATTTGTGG
i saiBol1.JH378168          I 2738 C 0
s cebCap1.NW_016107322v1     13897670 25 -  14377064 ATACCGTTTCTGCAAAAATTTATGT
i cebCap1.NW_016107322v1    I 2730 C 0
s aotNan1.NW_018487195v1      9132117 25 -   9889416 ATACCGTTTCTGCAAAAATTTGTGG
i aotNan1.NW_018487195v1    I 2658 C 0
s otoGar3.GL873528           24840225 23 -  38779656 --AGAATTTCTGAAAAAATTTGTAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18019019 25 +  39895921 ATGTCATTTCTGAGAAAATGTACAG
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I

a score=1583684.000000
s hg38.chr21_GL383579v2_alt     75838 121 +    201197 GTTAAGAAGAATGTTGGGTAGAAACAGCCAAGGTCATGTGTGTGACTTCAACCTTTTATTTTACTTTACTTTTCTCTGTCATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
s panTro5.chr21               8694533 121 +  33445071 GTTAAGAAGAATGTTGGGTAGAAACAGCCAAGGTCATGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTCATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22233763 121 +  46275980 GTTAAGAAGAATGTTGGGTAGAAACAGCCAAGGTCATGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTCATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216305 121 -  13858734 GTTAAGAAGAATGTTGGGTAGAAACAGCCAAGGTCATGTGTGTGACCTCAACCTTTTATTTTACTTTAGTTTTCTCTGTCATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9245704 121 +  32716333 GTTAAGAAGAATGTTGGGTTGAAACAGCCAAGGTCATGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTCATGGTGGTTAATTGGTATAAAAATGAATAGTATTATTACTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160652221 121 - 185818997 GTTAAGTAGAACGTTGGGTAGAAACAGCCAAGGTCACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTAATGGTGGTTAATAGGTATAAAAAAGAATAGCATTATTACTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167289182 121 - 192294377 GTTAAGTAGAACGTTGGGTAGAAACAGCCAAGGTCACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTAATGGTGGTTAATAGGTATAAAAATGAATAGCATTATTACTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913038 121 -  30496662 GTTAAGTAGAACGTTGGGTAGAAACAGCCAAGGTCACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTAATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13437857 121 +  21915920 GTTAAGTAGAACGTTGGGTAGAAACAGCCAAGGTCACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTAATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19939322 121 -  90373283 GTTAAGTAGAACGTTGGGTAGAAACAGCCAAGGTCACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTAATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3441980 121 +   7543664 GTTAAGTAGAACTTTGGGTAGAAACAGCCAAGGTCACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTCTGTAATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214052 121 -  13750039 GTTAAGTAGGACGTTGGGTAGAAACAGCCAAGGTTACGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTTTGTAATGGTGGTTAATAGGTATAAAAATGAATAGTATTATTACTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26478750 116 +  50472720 TTTAAGAAGAATGTTGGGTAGAAACAGTCAAGGTCATGTGTGTAACCTCAACC-----TTTTACTTTACTTTTCTGTGTCATGCTGGTTAATAGGTATAGAAATGAATAGTATGATTACTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8670574 121 +  13128814 TTTAAGAAGAATGTTGGGTAGAAACAGTCAAGGTCATGTGTGTGACCTCAACCTTTTATTTTACTTTACTTTTCTGTGTCATGGTGGTTAATAGGTATAGAAATGAATAGTATGATTACTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13897695 121 -  14377064 TTTAAGAAGAATGTTGGGTAGAAACAGTCAAGGTCATGTGTGTGACCTCAACCTTTTATTTTACTTTGCTTTTCTGTATCATGGTGGTTAATAGGTATAGAAATGAATAGTATGATTACTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9132142 121 -   9889416 TTTAAGAAGAATGTTGGGTAGAAACAGTCAAGGTCATGTGTGTGACCTCAATCTTTTATTTTACTTTACTTTTCTGTGTCATGATGGTTAATAGGTATAGAAATGAATAGTATGATTACTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23668788 116 +  47401472 GTTAAGAAGAATGCTTTGTAAAGACAACAAAGGTCATATGTGTGACCTCAGCCTTTTATTTGACTTCTCT-----GTGTCATGGTGATTAATAAGTATAAAAATGAATAGTATTACTACTT
i micMur3.chr31             N 0 C 0
s otoGar3.GL873528           24840248 119 -  38779656 GTTAAGAAGAAGGTTGTATAGAAACAACCAGGGTCATTTGTGTGACCTTAGCCTTTTATTTTACCTTACTTT--CGTGTCATGGTGATTAATCGGTATAAAAATGAATAGTATTATTACTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18019044 110 +  39895921 GTTAAGAAAAAAGTTAG-----AACAACCAAGGTCATGAGTGTGACCTCACCCTTTCATTTCA------TTTTCTGTGCCATGGTGATTAATAGCTATAAAAATGAATAGTATTATTACTT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2322095 4498 +   3081153 I

a score=5494931.000000
s hg38.chr21_GL383579v2_alt     75959 372 +    201197 TTAAGAATGAAATCAAGGCAATTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATTAGCCTTTATTCTTTTTTTT----AGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTATCTACGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCGGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCGCCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
s panTro5.chr21               8694654 371 +  33445071 TTAAGACTGAAATCAAGGCAATTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATTAGCCTTTATTCTTTTTTT-----AGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTACAGTGAAACTCTTTTTGATCATTTATCCATAATTGAATTCGGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAGAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22233884 371 +  46275980 TTAAGAATGAAATCAAGGCAATTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATTAGCCTTTATTCTTTTTTT-----AGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATATGTTTTCTCTATAGTGAAACTCTTTTTGATCCTTTATCCATAATTGAATTCGGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAGAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216426 371 -  13858734 TTAAGAATGAAATCAAGGCAATTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATTAGCCTTTATTCTTTTTTTT----AGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTC-ACAGTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCGGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGGCACAGTGCATAGCAAATGGTCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9245825 369 +  32716333 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTTTTT-----AGTGAGAGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTACGCTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCGGCTCTTAGTTGGTATCTCGTGTGTATGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATACTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAA-AGTTCAAATTCTTAATTAAATCACCTGCC-TTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160652342 374 - 185818997 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTTTATTTA--AGTGAATGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATGCAGCTCTTAGTTGGTATCTTGTGTGTAGGTAAGTTTGTGTAGTTTAGCATCATTATATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167289303 374 - 192294377 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTTTATTTA--AGTGAATGTATTACATTATTTGCATATTTAGTTTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATGCAGCTCTTAGTTGGTATCTTGTGTGTAGGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913159 374 -  30496662 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTACGAGCCTTTATTCTTTTTATTTA--AGTGAATGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATGCAGCTCTTAGTTGGTATCTTGTGTGTAGGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATTCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13437978 374 +  21915920 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTTTATTTA--AGTGAATGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCAGCTCTTAGTTGGTATCTTGTGTGTAGGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGAATAGCAAATGGTCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19939443 374 -  90373283 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTTTATTTA--AGTGAATGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCAGCTCTTAGTTGGTATCTTGTGTGTAGGTAAGTTTGTGTAGTGTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3442101 374 +   7543664 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTTTATTTA--AGTGAATGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCAGCTCTTAGTTGGTATCTTGTGTGTAGGTAAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGAATAGCAAATGGTCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214173 360 -  13750039 TTAATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCAT--------------GACATTTTGTCTATGAGCCTTTATTCTTTTTATTTA--AGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAACTCTTTTTGATAATTTATCCATAATTGAATTCAGCTCTTAGTTGGTATCTTGTGTGTAGGTGAGTTTGTGTAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAAAAGTTCAAATTCTTAATTAAATCACCTGCCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26478866 373 +  50472720 TTAATAATGCAATCAAGGCAGTTTGAAAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTCCTTTTTT-AGTGAGTGCATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAA--CTTTTTGATAATTTATTCATAATTGAATTGAGCACTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTATCATTTAGCATCCTTGTATTAGATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAGAAGTTCAAATTCTTAATTAAATCACCTGTCTTTTTTTCTCAGACACAGTGCACAGCAAATGGTCC
i calJac3.chr21             C 0 I 3
s saiBol1.JH378168            8670695 374 +  13128814 TTAATAATGAAATCAAGGCAGTTTGAAAAGAATATGGAAATGCGTGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTCCTTTTTTAAGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGGTTTCTCTATGGTGAAA--CTTTTTGATAATTTATTCATAATTGAATTGAGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTATAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTGTGCACCAAGGAGCTAAATGTCAAGCTCAAGAAGTTCAAATTCTTAATTAAATCACCTGTCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i saiBol1.JH378168          C 0 I 3
s cebCap1.NW_016107322v1     13897816 373 -  14377064 TTAATAATGAAATCAAGGCAGTTTGAAAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTTGTCTATGAGCCTTTATTCTTTCCTTTTTT-AGTGAGTGTATTACACTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAA--CTTTTTGATAATTTATTCATAATTGAATTGAGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTATAGTTTAGCATCCTTGTATTATATTGCATGAGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTGAAGAAGTTCAAATTCTTAATTAAATCACCTGTCTTTTTTTCTCAGATACAGTGTACAGCAAATGGTCT
i cebCap1.NW_016107322v1    C 0 I 3
s aotNan1.NW_018487195v1      9132263 373 -   9889416 TTAATAATGAAATCAAGGCAGTTTGAAAAGAATATGGAAATGCATGACATTTCGTGACAGACATTTTGTCTATGGGGCTTTATTCTTTCCTTTTTT-AGTGAGTGTATTACATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGTGAAA--CTTTTTGATAATTTATTCATAATTGAATTGAGCTCTTAGTTGGTATCTTGTGTGTATGTAAGTTTGTATAGTTTAGCATCCTTGTATTATATTGCATGGGTTACTGCTTCAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAGAAGTTCAAATTCTTAATTAAATCACCTGTCTTTTTTTCTCAGACACAGTGCATAGCAAATGGTCC
i aotNan1.NW_018487195v1    C 0 I 3
s micMur3.chr31              23668904 363 +  47401472 TTAATAATGAAATCAAAGC---------AGAATATGGAAATGCATGACATTTTGTGACAGACAGTTTGTCTA-GTGCCTTTATTCTTTTCTCTTTC-AATGAGTGTATTACACAATTTGCATATTTAATATAAAGATAATAAGTTTTCTCTATGGCAAAATTCTTCTGG-TAATTTATCCATAATTGAATTGGGCTCTTAGTTGGTATCTTGTGTGTATGTGAGTTTATGTAGTTTAGCATCCCTGTATTATATTGCATGGGTTGCTGCTTTAAAAAATTATGCACCAAGGAGATAAATGTCAAGTTCAAGAAGTTCATATTCATAATTTAGCCACCTGCC-TTTCTTCTTAGACATGATGCATAGTAAACGATTC
i micMur3.chr31             C 0 I 3
s otoGar3.GL873528           24840367 357 -  38779656 TTAATAATAAAATCAAAGCATTTTGACAAGAATATGGAAATGCATGACATTTTGT----GACAGTTTGTCCA-CAACCTTTATTCTGTCCTCTTTC-AGTGAGTTTATTAAATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGCAAAATTCTTTTGG------------TAATTAAATTGGGCTCAGAGTTGGTATCTTGTGTGTATGTGATTTTATGTAGTTTTGCAGTCCTGTATTATATTGCACGGATTAATGCTTTAAAAAATTATGCACCAAGGAGATAAATGTCAAGATCAAGAAGCTCACATTCATATTTACATCACCTGCC-TCCCTTCTCAGACATGACACATAATAAATGATTC
i otoGar3.GL873528          C 0 I 1125
s canFam3.chr31              18019154 373 +  39895921 TTGATAATGAAATCAAGGCAGTTTGATAAGAATATGGAAATGCATGACATTTTGTGACAGACATTTGATCTAGGAGCCTTTATTCTTCCCTCTTTC-AACGAGCGTATTGCATTATTTGCATATTTAGTGTAAAGATAATAGGTTTTCTCTATGGCAAAACTCTTTTGG-TAATTTATCCATAATTGAATTGGTTTCTTAGTTGGTATCTTGTGTATATGTGAGTTTATGTAGTTTAGCATCCTTGTTTTATATTGCATGGGTTACTGCTTTAAAAAATTATGCACCAAGGAGATAAATGTCAAGCTCAAGAAGTTCAGATTCATAATTAAACTACCTGCC-TTTCTCCTCATACATGGCACATAACAAATAGTTC
i canFam3.chr31             C 0 I 3
s dasNov3.JH578070            2326593 372 +   3081153 TTGATAATGAAATCAAGGCACTTTGATAA-AATATGGAAATGCATGACATTTTGTGACAGTCATTTGTTCTAGGATCCTTTATTCTTTCCTGTTTC-CATGAGTGTATTGCAGTATTTGCATATTTCATGTAACGGTAATAGGTTTTCTCCATGGCAAAATTCTTTTGG-TAATTTATCCATAATTGAATTGGGCTCTTAGTTGGTATCTTGTGTGTCTGTGAGTTTATGTCATTTAACATCCTTGTATTATAGTGCATGGATTACTGCTTTAAAAAATTATGCACCAAGGAAATAAATGTCAAACCCATGAAGTTCAAATTCATAATTAAATCACCTACC-TTCCTGTTTATACACGGTGCATATCAAATGGCTC
i dasNov3.JH578070          I 4498 I 3

a score=13263.000000
s hg38.chr21_GL383579v2_alt     76331 3 +    201197 AAA-
s panTro5.chr21               8695025 3 +  33445071 AAA-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22234255 3 +  46275980 AAA-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216797 3 -  13858734 AAA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9246194 3 +  32716333 AAA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160652716 3 - 185818997 AAA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167289677 3 - 192294377 AAA-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913533 3 -  30496662 AAA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13438352 3 +  21915920 AAA-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19939817 3 -  90373283 AAA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3442475 3 +   7543664 AAA-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214533 3 -  13750039 AAA-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26479242 3 +  50472720 CAA-
i calJac3.chr21             I 3 C 0
s saiBol1.JH378168            8671072 3 +  13128814 CAA-
i saiBol1.JH378168          I 3 C 0
s cebCap1.NW_016107322v1     13898192 3 -  14377064 CAA-
i cebCap1.NW_016107322v1    I 3 C 0
s aotNan1.NW_018487195v1      9132639 3 -   9889416 CAA-
i aotNan1.NW_018487195v1    I 3 C 0
s micMur3.chr31              23669270 2 +  47401472 -CA-
i micMur3.chr31             I 3 I 1
s canFam3.chr31              18019530 2 +  39895921 -CA-
i canFam3.chr31             I 3 I 1
s dasNov3.JH578070            2326968 3 +   3081153 -CAT
i dasNov3.JH578070          I 3 C 0
e otoGar3.GL873528           24840724 1125 -  38779656 I

a score=618204.000000
s hg38.chr21_GL383579v2_alt     76334 54 +    201197 TTTTAAGCAACACTGAGTTACTCTCTTCAATTTGACTAGCTTTGTTTTT---TAGCT--------------
s panTro5.chr21               8695028 54 +  33445071 TTTTAAGCAACACTGAGTTACTCTCTTCAATTTGACTAGCTTTGTTTTT---TAGCT--------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22234258 54 +  46275980 TTTTAAGCAACACTGAGTTACTCTCTTCAATTTGACTAGCTTTGTTTTT---TAGCT--------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216800 54 -  13858734 TTTTAAGCAACACTGAGTTACTCTCTTCAATTTGACTAGCTTTGTTTTT---TAGCT--------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9246197 54 +  32716333 TTTTAAGCAACACTGAGTTACTCTCTTCAATTTGACTAGCTTTGTTTTT---TAGCT--------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160652719 52 - 185818997 TTTTAAGCAACACTGAGTTATTCTCTTCAATTTAACTAGCTTTA--TTT---TAGCT--------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167289680 52 - 192294377 TTTTAAGCAACACTGAGTTATTCTCTTCAATTTAACTAGCTTTA--TTT---TAGCT--------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913536 52 -  30496662 TTTTAAGCAACACTGAGTTATTCTCTTCAATTTAACTAGCTTTA--TTT---TAGCT--------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13438355 52 +  21915920 TTTTAAGCAACACTGAGTTATTCTCTTCAATTTAACTAGCTTTA--TTT---TAGCT--------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19939820 52 -  90373283 TTTTAAGCAACACTGAGTTATTCTCTTCAATTTAACTAGCTTTA--CTT---TAGCT--------------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3442478 52 +   7543664 TTTTAAGCAACACTGAGTTATTCTCTTCAATTTAACTAGCTTTA--TTT---TAGCT--------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214536 52 -  13750039 TTTTAAGCAACACTGAGTTACTCTCTTCAATTTAACTAGCTTTA--TTT---TAGCT--------------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26479245 53 +  50472720 TTTTAACCAACACTGAGTTGCTCTCTTCAATTT-ACTAGCTTTTTTTCT---TAGCT--------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8671075 53 +  13128814 TTTTAACCAACACTGAATTACTCTCTTCAATTT-ACTAGCTTTTTTTCT---TAGTT--------------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13898195 53 -  14377064 TTTTAACCAACACTGAGTTACTCTCTTCAATTT-ACTAGCTTTTTTTCT---TAGCT--------------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9132642 53 -   9889416 TTTTAACCAACACTGAGTTACTCTCTTCAATTT-ACTAGCTTTTTTTCT---TTGCT--------------
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23669273 54 +  47401472 TTTTAACTAACAATGAATTACTCTATTCAATTTGACTAGCTTTTTTTTT---TAGCT--------------
i micMur3.chr31             I 1 I 2409
s otoGar3.GL873528           24841849 57 -  38779656 TTTTAACTAACATGGATTTATTTTACTCAATCTGACTAGTTTTTTTTTTTCATAGTT--------------
i otoGar3.GL873528          I 1125 C 0
s canFam3.chr31              18019533 54 +  39895921 TTTTAGCTAACACAGAGTTATCCTATCCAATTTGACTAGCATTTTCTTT---AATCT--------------
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2326971 58 +   3081153 TTTTAACTGA----GAGTTGCTCTGT----TGTGATTAGATTTG--ACT---TAGCTCTGATACTATGTCT
i dasNov3.JH578070          C 0 C 0

a score=3291823.000000
s hg38.chr21_GL383579v2_alt     76388 313 +    201197 GCAAA-----------------ATCTT--CTTAGACTT--AACAA---TATTTAAC--AAAAATGTATTGTGTGATACATTTACTTTTGGAGTGTGTGATCACTGTCAGTTGTATGA--------TATTTTGCAG-TATTTTCAGAGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATGATTGAATAATTGTCTTTTAGAAGTGATTTGGAAATAGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGCCATTCAGAAACTACTCCATG------------------------------------TGATTTACGTGAGCTTT-------------------------AA----CCCCT---CAGTTTTAATGTGAGCTCAACTGAATGGCCAAATA
s panTro5.chr21               8695082 313 +  33445071 GCAAA-----------------ATCTT--CTTAGACTT--AACAA---TATTTAAC--AAAAATGTATTGTGTGATACATTTACTTTTGGAGTGTGTGATCACTGTCAGTTGTATGA--------TATTTTGCAG-TGTTTTCAGAGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATGATTGAATAATTGTCTTTTAGAAGTGATTTGGAAATAGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGCCATTCAGAAACTACTCCATG------------------------------------TGATTTACGTGAGCTTT-------------------------AA----CCCCT---CAGTTTTAATGTGAGCTCAACTGAATGGCCAAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22234312 313 +  46275980 GCAAA-----------------ATCTT--CTTAGACTT--AACAA---TATTTAAC--AAAAATGTATTGTGTGATACATTTACTTTTGGAGTGTGTGATCACTGTCAGTTGTATGA--------TATTTTGCAG-TGTTTTCAGAGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATGATTGAATAATTGTCTTTTAGAAGTGATTTGGAAATAGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGCCATTCAGAAACTACTCCATG------------------------------------TGATTTACGTGAGCTTT-------------------------AA----CCCCT---CAGTTTTAATGTGAGCTCAACTGAATGGCCAAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8216854 313 -  13858734 ACAAA-----------------ATCTT--CTTAGACTT--AACAA---TATTTAAC--AAAAATGTATTGTGTGATACATTTACTTTTGGAGTGTGTGATCACTGTCAGTTGTCTGA--------TATTTTGCAG-TGTTTTCAGAGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATGATTGAATAATTGTCTTTTAGAAGTGATTTGGAAATAGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGCCATTCAGAAACTACTCCATG------------------------------------TGATTCACGTGAGCTTT-------------------------AA----CCCCT---CAGTTTTAATGTGAGCTCAACTGAATGGCCAAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9246251 312 +  32716333 GCAAA-----------------ATCTT--CTTAGACTT--AAAAA---TATTTAAC--AGAAATGTATTGTGTGATACATTTACTTTTGGAGTGTGTGATCACTGTCAGTTGTATGA--------TATTTTGCAG-TGTTTTCAGAGAA-GTGTTGTATATTAACAATGACTGTATCC-TTAAGTTGAATGATTGAATAATTGTCTTTTAGAAATGATTTGGAAATAGTAAAAT-AATGTGAGTTGACAGACACCAGGGATTTTAACAAGCCATTCAGAAACTACTCCATG------------------------------------TGATTTATGTGAGCTTT-------------------------AA----CCCCT---GAGTTTTAATGTGAGCTGAACTGAATGGCCAAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160652771 331 - 185818997 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--AAAAAC--TATTTAAC--AAAAGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACGGTCAGTGGTATGA--------TATTTTGCAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATAATTGAATAATTGTCTTTTATAAATGATTTGGAAATGGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGCATTCAGAAACTACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----TCCCT---CAGTTTTAATGCGAGCTCAACTGATTGGCCACATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167289732 331 - 192294377 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--AAAAAC--TATTTAAC--AAAAGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACGGTCAGTGGTATGA--------TATTTTGTAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATAATTGAATAATTGTCTTTTATAAATGATTTGGAAATTGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGCATTCAGAAACTACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----TCCCT---CAGTTTTAATGCGAGCTCAACTGATTGGCCACATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913588 331 -  30496662 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--AAAAAC--TATTTAAC--AAAAGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACGGTCAGTGGTATGA--------TATTTTGCAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATAATTGAATAATTGTCTTTTATAAATGATTTGGAAATGGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGCATTCAGAAACTACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----TCCCT---CAGTTTTAATGCGAGCTCAACTGATTGGCCACATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13438407 331 +  21915920 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--AAAAAC--TATTTAAC--AAAAGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACGGTCAGTGGTATGA--------TATTTTGGAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATAATTGAATAATTGTCTTTTATAAATGATTTGGAAATGGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGCATTCAGAAACTACTCCATG------------------------------------TGATTTATATAAGCTTT-------------------------AA----TCCCT---CAGTTTTAATGCGAGCTCAACTGATTGGCCACATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19939872 331 -  90373283 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--AAAAAC--TATTTAAC--AAAGGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACAGTCAGTGGTATGA--------TATTTTGCAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATAATTGAATAATTGTCTTTTATAAATGATTTGGAAATGGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGTATTCAGAAACTACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----TCCCT---TAGTTTTAATGCGAGCTCAACTGATTAGCCACATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3442530 331 +   7543664 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--AAAAAC--TATTTAAC--AAAAGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACGGTCAGTGGTATGA--------TGTTTTGGAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAATGATTGTATCC-TTAAGTTGAATAATTGAATAATTGTCTTTTATAAATGATTTGGAAATGGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGCATTCAGAAACTACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----TCCCT---CAGTTTTAATGCGAGCTCAACTGATTGGCCACATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214588 331 -  13750039 GCAAAATCACTTATCTGATTATATCTT--CTTAGACTT--GAAAAC--TATTTAAC--AAAAGTGTATTGTGTGATACATTTATTTTTGGAGTGTGTGATCACTGTCAGTGGTATGA--------TATTTTGCAG-TGTTTTCAGGGAA-GTGTTGTATATTAACAACGATTGTATCC-TTAAGTTGAACAATTGAATAATTGTATTTTATTAATGATTTGGAAATGGTAAAATGAATGTGAGTTGACAGATACCAGTGATTTTAACAAGGCGTTCAGAAACTACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----TCCCT---CAGTTTTAATGCGAGCTCAACTGATTGGCCACATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26479298 323 +  50472720 GAAAAATCGCTTGTCTGATTATCTCTT--CTTAATCTT--AAAAAA--TAGTTAAC--AAAAATGTATTCTTTAATACATTTATTTTTGGAGTGTGTGATTATTGTCAGTTGTGTGA--------TATTTT-CAG-TTTTGTCAGGGAA-GTG---TATATTAACAATCATTGTACTC-TCAAGTTGAATA----AAGCATTATCTTTTAGAAATGATTAGGATATGGTAAAATGAATGTGAGTGGATGGATACCAATGATTTTAACAAGCCATTCAGAAATGACTCCATG------------------------------------TGATTTACATAAGCTTT-------------------------AA----CCCTT---CAGTTTTAATGTGAGCTCAACTGAATGACCACATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8671128 331 +  13128814 GCAAAATCATTTCTCTGATTATCTCTTTACTTAGTCTTAAAAAAAA--AAGTTAAC--AAAAATGTACTCTTTAATATATTTATTTTTGGAGTGTGTGATTATTGTCAGTTGTATGG--------TATTTT-CAGTTTTTTTCAGGGAA-GTGTTTTATATTAACAATCATTGTACTC-TTAAGTTGAATA----AAACATTGTCTTTTAGAAATGATTAGGAAATGGCAAAATGAATGTGAGTTGATGGATACCAATGATTTTAACAAGCCATTCAGAAATGACTCCATG------------------------------------TGATTTATGTAAGCTTT-------------------------AA----CCCTT---CAGTTTTAATGTGAGCTCAACTGAATGACCACATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13898248 323 -  14377064 GCAAAATCACTTTTCTGATTATCTCTT--CTTAGTCTT--ATAAAA--TAGTTAAC--AAAAATGTATTGTTTAATACATTTATTTTTGGAGTGTGTGATTACTGTCAGTTGTATGA--------TATTTT-CAG-TTTTTTCAGGGAA-GTGTTGTATATTAACAATCATTGTACTC---AAGTTGAATA----AAACATTGTCTTTTAGAAATGATTAGAAAATGGTAAAATGAATGTAAGTTGATGGATACCAATGATTTT-ACAAGCCATTCAGAAATGACTCCATG------------------------------------TGATTTACATAAGCTTT-------------------------AA----CCCTT---CAGTTTTAATGTGAGCTCAACTGAATTACCACATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9132695 323 -   9889416 GCAAAATCACTTATCTGATTATCTCTT--CTTAGTCTT--AAAAAA--TAGTTAAC--AAAAATGTATTCCTTAATACATTTATTTTTGGAGTGTGTGATTACTGTCAGTTGTGTGA--------TATTTT-CAG-TTTTTTCAGGGAA-GTG---TATATTAACAATCATTGTACTC-TTAAGTTGAATA----AAACATTGTCTTTTAGAAATGATTAGGAAATGGTAAAATGAATGTGAGTTGATGGATACCAATGATTTTAACAAGCCATTCAGAAATGACTCCATG------------------------------------TGATTTACGTAAGCTTT-------------------------AA----CTCTT---CAGTTTTAATGTGAGCTCAACTGAATGACCAAATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24841906 327 -  38779656 ACAATGTTACATATCTGATTAGATATA--CTTAATCTTTTAAAAA---TACTTTG---AAAAATATATTGCTAGATAGATTTATTTCTGCATTGTTTGATAATTTTCAGGCACATGA--------TATTGTAAGG-AGTTT---GGGGG-GCACTGTATGTTTACAACGAGTATGCCC-TCAAGTTGAACG----TCACATTACATTTTAGGAGTGATTTGAAAATCTTAAAATAAGTGCAAAGAGGCAGTTACCAATGGCTTTGGCAAGTTATGCAGAAACTACTCCATA------------------------------------TGATTTATGTAAATCGT-------------------------TA----CTCCTCTCCAGTTTCAATGTGAGTTCAGTTGAAAATCTGAAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18019587 312 +  39895921 --GATATTACTAACCTGGTTAACATTC--CTTCACCTT--TAAAACAACATTTAAC--AGAAATATATCACAGGATAATCTTATTTTTGGAAGGTGTGATAATTTTCATGTATATGA--------TACTCTGCAG-GTTATT--GGGGA-CTGTTGTATAGTAACAGTGACTGGATCC-TTCATTTCAATC--------ATTATCTTTCA-----------GGAATGGGAAAATAATTATAAGTTGACACGTACTAAAAATGTAGACAAGCTACGCAGAAGCTACTCCATG------------------------------------TATTTTGTATAAATATT-------------------------AGGTATCTCTC---CCATTTCAACATCAGTTTAAGTGGATGACCGAA--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2327029 383 +   3081153 ----------------GAATAGCTTTC--TTTATTTTT--TAAAAGTTTATTTAACTAGAAAATATATTGCATAATATGCTTG-TTTTGCAGTATGCTA-AATTTTCAGGGTTATGATTTTGTTTTGTTTTGTTT-TATATTTAGTGAGTGGGTTATGCATTAGCACTGATTGTGCCCTTTCAGTCCAAAG----GAACACTATCTTTTAGGAATGATTTGAGGATGGAGAAATAAATGTAAGTTGACATATATTGATGGCTTAGACAAGCAGTGCCCAAACCATCCCGTGATTTTGCATGTAAATCTTATGCTCCTCTGAGGTTTCTGATTTAACTGGGTTTCTCTGGATAAAGCCATCCTTTGTCAAAG----TACCC---TTAATTGAATATAAGTTTAATTAAATGACTGAAA-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I

a score=558169.000000
s hg38.chr21_GL383579v2_alt     76701 61 +    201197 TATTGCAATCATTTATATATTGCAATCCCCTGGGATTCTAGAGTTTAAAAAATATAGGATT
s panTro5.chr21               8695395 61 +  33445071 TATTGCAATCATTTATATATTGCAATCCCCTGGGATTCTAGAGTTTAAAAAATATAGGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22234625 61 +  46275980 TATTGCAATCATTTATATATTGCAATCCCCTGGGATTCTAGAGTTTAAAAAATATAGGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8217167 61 -  13858734 TATTGCAATCATTTATATATTGCAATCCCCTGGGATTCTAGAGTTTAAAAAATATAGGATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9246563 61 +  32716333 TATTGCAATCATTTATATATTGCAATCCCCTGGGATTCTAGAGTTTAAAAAATATAGGATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160653102 61 - 185818997 TACTGAAGTCATTTATATATTGCAATTCCCCGGGATTCTAGAGTTTAAAAAAGATAGGATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167290063 61 - 192294377 TACTGAAGTCATTTATATATTGCAATCCCCCGGGATTCTAGAGTTTAAAAAAGATAGGATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913919 61 -  30496662 TACTGAAGTCATTTATATATTGCAATCCCCCGGGATTCTAGAGTTTAAAAAAGATAGGATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13438738 61 +  21915920 TACTGAAGTCATTTATATATTGCAATCCCCCGGGATTCTAGAGTTTAAAAAAGATAGGACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19940203 61 -  90373283 TATTGAAGTCATTTATATATTGCAATCCCCCAGGATTCTAGAGTTTAAAAAACATAGGATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3442861 61 +   7543664 TACTGAAGTCATTTATATATTGCAATCCCCCGGGATTCTAGAGTTTAAAAAAGATAGGACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214919 61 -  13750039 TATTGAAGTCATTTATATATTGCAATCCCCCGGGATTCCAGAGTTTAAAAAACATAGGATC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26479621 61 +  50472720 TATTGTAGTCATTCATATACTGCAATCCCCTGGGATTCTAGAGTTTAAAAAATGTAAGGTT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13898571 61 -  14377064 TATTGCAGTCATTCATACATTGCAATACCCTGGGATTCTAGAGTTTAAAAAATATAAGGTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9133018 61 -   9889416 TATTGCAGTAATTCATATATTGCAATCCCCTGGGATTCTAGAATTTAAAAAATATAAGGTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24842233 55 -  38779656 AATTCTACCCTCTTATATCTT--AATCTCCTTAAATTCCGGAGCATAAG----GCAAGATT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18019899 60 +  39895921 TAATGCTACC-CTCAGATATTGCAATTACCTTAGATTCTGTGATATAGATAATATAGCATT
i canFam3.chr31             C 0 I 651
s dasNov3.JH578070            2327412 59 +   3081153 TAATCTTACC-CTCATATATCTTAATCCCTTTGACCTCTGAAATATAAA-AATATGACATG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e saiBol1.JH378168            8671459  0 +  13128814 C

a score=1964231.000000
s hg38.chr21_GL383579v2_alt     76762 198 +    201197 GTTCTCTTAGTGCTAGACGGTTAAATCCTTTAGAGAATGTACAATAACTT-TTTTAATAAGAGCAGTGGTGACTACATCAAACCTACTGTGGAGTAAGCTGTTCCTATAATCATTGAGTAAATTAAA----ATTTATGAATTTATGAGTTTTATCTAATA-CACGAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
s panTro5.chr21               8695456 198 +  33445071 GTTCTCTTAGTGCTAGAAGGTTAAATCCTTTAGAGAATGTACAATAACTT-TTTTAATAAGAGCAGTGGTGACTACAGCAAACCTACTGTGGAGTAAGCTGTTCCTATAATCATTGAGTAAATTAAA----ATTTATGAATTTATGAGTTTTATCTAATA-CACGAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22234686 198 +  46275980 GTTCTCTTAGTGCTAGAAGGTTAAATCCTTTAGAGAATGTACAATAACTT-TTTTAATAAGAGCAGTGGTGACTACAGCAAACCTACTGTGGAGTAAGCTGTTCCTATAATCATTGAGTAAATTAAA----ATTTATGAATTTATGAGTTTTATCTAATA-CACGAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8217228 198 -  13858734 GTTCTCTTAGTGCTAGAAGGTTAAATCCTTTAGAGAATGTACAATAAGTT-TTTTAATAAGAGCAGTGGTGACTACAGCAAACCTACTGTGGAGTAAGCTGTTCCTATAATCATTGAGTAAATTAAA----ATTTATGAATTTATGAGTTTTATCTAATA-CACGAAAC-AGATAATGAATACATTAGGTACATATTGTCTCTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9246624 197 +  32716333 GTTCTCTTAGTGCTAGAAGGTTAAATACTTTAGAGAATGTACAATAAC-T-TTTTAATAAGAGCAGTGGTGACTACATCAAACCTACTGGGGAGTAAGCTGTTCCTATAGTTGTTGAGTAAATTCAA----ATTTATGAATTTATGAGTTTTATCTAATA-CACAAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160653163 202 - 185818997 ATTCTCTTAGTGATGGAAGGTTAAATCTTTTAGAGAATGTACAACAACTT-TTTTAATAAGAGCAGTGATGACTACATCTAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-CATGAAAC-AGATAATGAATACATTAAGTACATGTTGTCTCTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167290124 202 - 192294377 GTTCTCTTAGTGATGGAAGGTTAAATCCTTTAGAGAATGTACAACAACTT-TTTTAATAAGAGCAGTGATGACTACATCTAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-CACGAAAC-AGATAATGAATACATTAAGTACATGTTGTCTCTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4913980 202 -  30496662 GTTCTCTTAGTGATGGAAGGTTAAATCCTTTAGAGAATGTACAACAACTT-TTTAAATAAGAGCAGTGATGACTACATCTAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-CATGAAAC-AGATAATGAATACATTAAGTACATGTTGTCTCTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13438799 202 +  21915920 GTTCTCTTAGTGATGGAAGGTTAAATCCTTTAGAGAATGTACAACAACTT-TTTAAATAAAAGCAGTGATGACTACATCAAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-CATGAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19940264 202 -  90373283 GTTCTCTTAGTGATAGAAGGTTAAATCCTTTAGAGAATGTACAACAACTT-TTTTAATAAGAGCAGTGATGACTACATCAAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-TATGAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3442922 202 +   7543664 GTTCTCTTAGTGATGGAAGGTTAAATCCTTTAGAGAATGTACAACAACTT-TTTAAATAAAAGCAGTGATGACTACATCAAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-CATGAAAC-AGATAATGAATACATTAAGTACATATTGTCTCTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5214980 199 -  13750039 GTTCTCTTAGTGATAGAAGGTTAAATCCTTTAGAGAATGT---ACAACTT-TTTAAATAAGAGCAGTGATGACTACATCAAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGAGTAAATTAAAATACATTTATGAATTTATGAGTTTTATCTAATA-CATGAAAC-AGATAATGAATACATTAAGTACATATTATCTCTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26479682 202 +  50472720 GCTCTTTTAGTGCTAGTAGGTTAAACCTTTTAGAGAATGTACAATAACAT-TTTAAATGAAAGCAGTGATGACTACATCAAACCTACTTTGGAGTAAGCTGTTCCGATAGTCATTGAGtaaattaaaatacatttataaatttataaGTTTTATCCAATA-CATGAAAC-AGGTAATGAATACATTAAGTATATGTTATCTCTAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13898632 202 -  14377064 GTTCTCTTAGTGCTAGCAGGTTAAACCTGTTAGAAAATGTACAATAACTT-TTTAAATAAAAGCAGTGATGACTACATCAAACCTACTTTGGAGTAAGCTGTTCCTATAGTCATTGGGTAAATTAAAATACATTGATAAATTTATGAGTTTTATCTAATA-CATGAAAC-AGGTAATGAATACATTAAATATGTATTGTCTCTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9133079 199 -   9889416 GTTTTCTTAGTGCTAGAAGGTTAAACCTTTTAGAGAATGTACAATAACTT-TTTAAATAAAAGCAGTGATGACTACATCAAACCTACTTAGGAGTAAGCTGTTCCTATAGTC---GAGTAAATTAAAATACATTTATAAATTTATAAGTTTTATCCAGTA-CATGAAAC-AGGTAATGAATACATTAAGTATGTAGTCTCTCTAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24842288 203 -  38779656 ATCCTCTTTGTACTAGAAATATAAATATTTTAGAAAATGTACAGTGACTTATTTTTATAAAAGTGGT-ATGACCACATTAAACCTGGTTTGTAATAAACTGTTCTTACAGTCATTAAGTATATTAAAATAAATGTATAAAACTATAAGTTTTATCCAAGA-TTTGAAACTGGAAAATGAATACATGAAATGTGTATTATCTATAT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2327471 205 +   3081153 ATTCCTTTTATGGTAGAAGGTCAATTCTTTTAAAGAATGCTCaataaattatttttataaaatCAGTGATGGCCTCATGAAGCTTAGCTGGTTATAAGCTATTCCTATAGTAATTTAGTTCATTAAAATAAATCTGTGTATTTGGAGTTGTTTTCCAAGATTATGAAATTGGAAAATCAATACAGTAAGTATATATCATCTTTGT
i dasNov3.JH578070          C 0 I 18
e micMur3.chr31              23669327 2409 +  47401472 I
e canFam3.chr31              18019959 651 +  39895921 I
e saiBol1.JH378168            8671459   0 +  13128814 C

a score=3103799.000000
s hg38.chr21_GL383579v2_alt     76960 371 +    201197 Acagttgtcccttgatatccatggaagattgtttccaggattccccatggataccaaaattcacagatgctcaagtcctttatataaaatgatatcatatttgcatataacctatgcagatcctctcatacactttaaataatctctgggccacttataatacttaatgagatataaattcgatgtaaatagttgataaatggtattatttagggattaaggacaagaacaaaatgtctatacatgttcagtacagacgcaaccacctatc-tcttttttttccctgaacattttctatccctgtgggttttgtggttgaatccatgg----attcatggaacctatggagggctaactgCATTGGCTTCCCTGTA
s panTro5.chr21               8695654 370 +  33445071 Acagttgtcccttgatatccacggaagattgtttccagcatcccccatggataccaaaattcacagatgctcaagtcctttatataaaatgatatcatatttgcatataacctatgcagatcctctcatacactttaaataatctctggaccacttataatacttaatgaaatataaattcgatgtaaatagttgataaatggtattatttagggattaagaacaagaacaaaatgtctatacatgttcagtacagatgcaaccacctatc-tcttttttttccctgaacattttctatccctgt-ggttttgtggttgaatccatgg----attcatggaacctatggagggctaactgCATTGGCTTCCCTGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22234884 369 +  46275980 Acagttgtcccttgatatccacagaagattgtttccagcatcccccatggataccaaaattcacagatgctcaagtcctttatataaaatgatatcatatttgcatataacctatgcagatcctctcatacactttaaataatctctggaccacttataatacttaatgaaatataaattcgatgtaaatagttgataaatggtattatttagggattaagaacaagaacaaaatgtctatacatgttcagtacagatgcaaccacctatc-tc-tttttttccctgaacattttctatccctgt-ggttttgtggttgaatccatgg----attcatggaacctatggagggctaactgCATTGGCTTCCCTGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8217426 369 -  13858734 Acagttgtcccttgatatccacggaagattgtttccaggatcccccatggataccaaaattcacaggtgctcaagtcctttacataaaatgatatcatatttgcatataacctatgcagatcctctcatacactttaaataatctctggaccacttataatacttaaggagatataaattcgatgtaaatagttgataaatggtattatttagggattaaggacaagaacaaaatgtctatacatgttcagtacagatgcaaccacctatc-tc-tttttttccctgaacattttctatccctgt-ggttttgtggttgaatccatgg----attcatggaacctatggagggctaactgCATTGGCTTCCCTGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9246821 368 +  32716333 Acagttttcccttgatatccatggaagattgtttccaggatcccccatggataccaaaattcacagatgctcaagtcctttatataaaatgatatcatatttgcatataacctatgcagatcctctcatatactttaaataatctctggaccacttataatacttaataagatataaatgcaatgtaaatagctgataatttgtattatttagggattaaggacaagaacaaaatgtc-atacatgttcagtacagacgcaaccacctatc-tt-tttttttccctgaacattttctattcctgt-ggttttgtggttgaatccatgg----attcatggaacctatggagggctaactgCATTGGCTTCCCTGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160653365 368 - 185818997 Acagttgtcccttgatatccgtggaagatagcttccaggatcccccatggatactaaaattcacagatgttcaaatcctttatataaaatgatatcgcatttgcatataacctatgcatatcctccattatactttaaataatctctggactacttataatacttaataagatataaactcaatgtaaatagttgataatttgtattgtttagggattaagggctggaacaaaatgtctatacatgttcagtacagacgcaaccacctatc-t--tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccgtgg----attcatggagcccatggagggctaactgTATTGGCTTCCCTGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167290326 368 - 192294377 Acagttgtcccttgatatccatggaagatagcttccaggatcccccatggatactaaaattcacagatgttcaaatcctttatataaaatgatatcgcatttgcatataacctatgcatatcctccattatactttaaataatctctggactacttataatacttaataagatataaactcaatgtaaatagttgataatttgtattgtttagggattaagggctggaacaaaatgtctatacatgttcagtacagacgcaaccacctatc-t--tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccgtgg----attcatggagcccatggagggctaactgTATTGGCTTCCCTGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4914182 368 -  30496662 Acagttgtcccttgatatccatggaagatagcttccaggatcccccatggatactaaaattcacagatgttcaaatcctttatataaaatgatatcgcatttgcatataacctatgcatatcctccattatactttaaataatctctggactacttataatacttaataagatataaactcaatgtaaatagttgataatttgttttgtttagggattaagggctggaacaaaatgtctatacatgttcagtacagacgcaaccacctatc-t--tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccgtgg----attcatggagcccatggagggctaactgTATTGGCTTCCCTGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13439001 365 +  21915920 Acagttgtcccttgatatccatggaagattgcttccaggatcccccatggataccaaaattcacagatgttcaaatcctttatataaa---atatcgtatttgcatataacctatgcatatcctccattatactttaaataatctctggactacttataatacttaataagatataaactcaatgtaaatagttgataatttgtattgtttagggattaagggctggaacaaaatgtctatacatgttcagtacagacacaaccacctatc-t--tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccatgg----attcatggagcccatggagggctaaccgTATTGGCTTCCCTGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19940466 368 -  90373283 Acagttgtcccttgatatccatggaagatagcttccaggatcccccatggatactaaaactcacagatgttcaaatcctttatataaaatgatatcgtatttgcatataacctatgcatatcctccattatactttaaataatctctggactacttataatacttaataagatataaactcgatgtaaatagttgataatttgtattgtttagggattaagggctagaacaaaatgtctatacatggtcagtacagacgcaaccacctatc-t--tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccttgg----attcatggagcccatggagggctaactgTATTGGCTTCCCTGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3443124 365 +   7543664 Acagttgtcccttgatatccatggaagattgcttccaggatcccccatggataccaaaattcacagatgttcaaatcctttatataaa---atatcgtatttgcatataacctatgcatatcctccattatactttaaataatctctggactacttataatacttaataagatataaactcaatgtaaatagttgataatttgtattgtttagggattaagggctggaacaaaatgtctatacatgttcagtacagacacaaccacctatc-t--tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccatgg----attcatggagcccatggagggctaactgTATTGGCTTCCCTGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5215179 367 -  13750039 Acagttgtcccttgatatccatggaagattgcttccaggatcccccatggataccaaaattcacagatgttcaaatcctttatataaaatgatatcatatttgcatataacctatgcatatcctctattatactttaaataatctctggactacttataacacttaataagatataaactcgatgtaaatagttgataatttgtattgtttagggattaaggactagaacaaaatgtctacacatgttcagtacagacgcaaccacctatc----tttttttccctgaacattttctatccatgt-ggttttgtggttgaatccgtgg----attcatggagcccatggagggctaactgTATTGGCTTCCCTGTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26479884 348 +  50472720 Acagttgtcccttgatatccatggaaaattgcctccaggatcccccatgtataccaaaatccacaaattctcaagtcctttatataaaatgata--acatttgcatataacctatgcagatcctcccatatacattaaataatctctggactatttataa----taataatatataaatttgatgtaaatagttgttactttgtatcttttagg-------------aaaaaaatgtttatacattttcagtacagatgaaatcacccatc-t--tttttttccctgaatatattctatccatgt-agttttgtggtt-aatccatgg----attcatggaacccagggagggttaactgTATTGGCTTCCCTGTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13898834 350 -  14377064 Acagttgtcccttaatatccatggaagattgcttccattatcccccatggataccaaaatccacaaatgctcaagtcctttatataaaatgata--acatttgcatataacctatgcaaatcctcccatatactt----taatctctgcactatttataa----taataacatataaatttgatgtaaatagctgttactttgtatcttttaggaa-----------aaaaaaatgtctatacattttcagtacagatgaaatcatccatc-t--tttttttccctgaatattttctatccatgt-agttttgtggtt-aatccatggattcattcatggaacccagggagggctaactgTACTGGCTTCCCTGTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9133278 352 -   9889416 ATagttgtcccttgatattcatagaagattacttccaagatcccccatggataccaaaatccacaaatgttcaagtcctttatataaaatgata--atatttgcatataacctatgcagatcctcccatatactttaaataatctctggactacttataacacttaataatatataaatttgatgtaaatagttgttactttgtattgtttagg-------------aaaaaaaagtctatacattttcagtacagatgcaatcacccatctt--tttttttccctgaatattttctatccatgt-a-ttttatggtt-aatccatgg----attcatggaacccagggagggctaactgTATTGGCTTCCCTGTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24842491 289 -  38779656 ATaggcatccc-tgctatctgggggatatacattccagggtcccctatggatgccaaactctatagctgctcaagtcccttatataaaatgaggtagtatttatatataattcatgcctatcccttcat-cacttttaatcatatctagattgctcatcacacccaatacaatgtcaatgctaaataaatagttgttacactgtattgtttagggaataataac---caaaaaacatctgtacgtgttcaata-------------------t---------------------------------a---------------CCATGG----AG-----------AAGAGGGGCCTACTGTACTGGCTCTTCTGAG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2327676  18 +   3081153 I
e canFam3.chr31              18019959 651 +  39895921 I
e saiBol1.JH378168            8671459   0 +  13128814 C

a score=3567111.000000
s hg38.chr21_GL383579v2_alt     77331 382 +    201197 TC---CTTTGAGAAACTGCTTCTCCTTTGCTCCATATAATTAGGGTGAAGCCGCAAGTCCTATGATCCTGCCTTTCATGTCGTAAAGATGCATATAAGACCCACGTTGGCCTATCTGTGTCAATTCCAT--------------CTCCTTGGATAC-GTGATTGTGTGGCGATGGGGATTAG-TAAGTGACT-AAGCAAAGCC-AGAAAGCTTTCA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGCGACAAATATCAGTTTTAAAATTTAGAACAAACTGCCT----AACAGGTTAGTATAG-AACAAATCAGACCTTATGAAGAGAGAA--------GTGTAAGGGTATGAGAATATGTGTGCAGTTATGTGCGTGCATGTGCATATAGACTTGTGTGAGT-TTGGCTGA
s panTro5.chr21               8696024 382 +  33445071 TC---CTTTGAGAAACTGCTTCTCCTTTGCTCCATATAATTAGGGTGAAGCCGCAAGTCCTATGATCCTGCCTTTCATGTCGTAAAGATGCATATAAGACCCACGTTGGCCTATCTGTGTCAATTCCAT--------------CTCCTTGGATAC-GTGATTGTGTGGCGATAGGGATTAG-TAAGTGACT-AAGCAAAGCC-AGAAAGCTTTCA---CTGATTAAGAATGCTAAAGACATTGTCTGAATGAAGCGACAAATATCAGTTTTAAAATTTAGAACAAACTGCCT----AACAGGTTAGTATAG-AACAAATCAGACCTTATGAAGAGAGAA--------GTGTAAGGGTATGAGAATATGTGTGCAGTTATGCGCGTGCATGTGCATATAGACTTGCGTGAGT-TTGGCTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22235253 382 +  46275980 TC---CTTTGAGAAACTGCTTCTCCTTTGCTCCATATAATTAGGGTGAAGCCGCAAGTCCTATGATCCTGCCTTTCATGTCGTAAAGATGCATATAAGACCCACGTTGGCCTATCTGTGTCAATTCCAT--------------CTCCTTGGATAC-GTGATTGTGTGGCGATAGGGATTAG-TAAGTGACT-AAGCAAAGCC-AGAAAGCTTTCA---CTGATTAAGAATGCTAAAGACATTGTCTGAATGAAGCGACAAATATCAGTTTTAAAATTTAGAACAAACTGCCT----AACAGGTTAGTATAG-AACAAATCAGACCTTATGAAGAGAGAA--------GTGTAAGGGTATGAGAATATGTGTGCAGTTATGCGCGTGCATGTGCATATAGACTTGCGTGAGT-TTGGCTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8217795 381 -  13858734 tc---ctttgagaaactgcttctcctttgctccgtataattagggtgaagccgcaagtcctacgatcctgcctttcatgtcgtaaagatgcatataagacccaggttggcctatctgtgtcaattccat--------------ctccttggatac-gtgattgtgtggcgatagggattag-taagtgact-aagcaaagcc-aGAAAGCTTTCA---CTGATTAAGAATG-TAAAGATGTTGTCTGAATGAAGCGACAAATATCAGTTTTAAAATTTAGAACAAACTGCCT----AACAGGTTAGTATAG-AACAAATCAGACCTTATGAAGAGAGAA--------GTGTAAGGGTATGAGAATATGTGTGCAGTTACGTGCGTGCATGTGCATATAGACTTGCGTGAGT-TTGGCTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9247189 380 +  32716333 tc---ctttcagaaactgcttctcctttactccatataattagggtgaagctacgagtccaacgatcctgccttttatgtcgtaaagatgcatataagacccatgttggcctatctgtgtcaattccat--------------ctccttggatac-gtgattgtgtggtgatagggattag-taagtgact-aagcaaagcc-aGAAAGCTTTCA---CCGATTAAGAATGCTAAAGATGTTGTCTGAATGAAGTGACAAATATCAGTTTTAAAATTTAGAACAAATTGCCT----AAAAGGTTAGTGTAG-AACAAATCAGACCTTATG--GAGAGAG--------GTGTGAGGGTGTGAGAATATGTGTGCAGTTATGTGTGTGCATGTGCACATAGACTTGCGTGATT-TTGGCTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160653733 380 - 185818997 tc---ctttgagaaactgcttctcctttactccatataattagggtgaagccacgagtcctatgatcctacctttcatgtcgtaaagatgcacataagacctatgttggcctatc--tattaattccat--------------ctccttagatac-gtgattgtgtggggatagggattaa-caagtgact-aagcaaagct-aGAATTCTTTCA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGTGACAAATACCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAG-AACAAATCAGAGCTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATATATGTGCAGTGATGTGTGTGCATGTGCATCTAGACTTGCATGAGT-TTGGCTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167290694 380 - 192294377 TC---CTTTGAGAAACTGCTTCTCCTTTACTCCATATAATTAGGGTGAAGCCACGAGTCCTATGATCCTGCCTTTCATGTCGTAAAGATGCACATAAGACCTATGTTGGCCTATC--TATTAATTCCAT--------------CTCCTTAGATAC-GTGATTGTGTGGGGATAGGGATTAA-CAAGTGACT-AAGCAAAGCC-AGAATTCTTTCA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGTGACAAATACCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAG-AACAAATCAGAGCTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATATATGTGCAGTGATGTGTGTGCATGTGCATCTAGACTTGCGTGAGT-TTGGCTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4914550 380 -  30496662 tc---ctttgagaaactgcttctcctttactccatataattagggtgaagccacgagtcctatgatcctgcctttcatgtcgtaaagatgcacataagacctatgttggcctatc--tattaattccat--------------ctccttagatac-gtgattgtgtggggatagggattaa-caagtgact-aagcaaagcc-aGAACTCTTTCA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGTGACAAATACCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAG-AACAAATCAGAGCTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATATATGTGCAGTGATGTGTGTGCATGTGCATCTAGACTTGCGTGAGT-TTGGCTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13439366 381 +  21915920 TC---CTTTGAGAAACTGCTTCTCCTTTACTCCATATAATAAGGGTGAAGCCACGAGTCCTATGATCCTGCCTTTCATGTCGTAAAGATGCACATAAGACCCATGTTGGCCTATCTGTGTTAATTCCAT--------------CTCCTTAGATAC-GTGATTGTGTGAGGATAGGGATTAA-CAAGTGACT-AAGCAAAGCC-AGAATTCTTTAA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGTGACAAATATCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAG-AACAAATTAGAGCTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATATATATTCAGTGATGTGTGTGCATGTGCATCTAGACTTGAA-GAGT-TTGGCTGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19940834 383 -  90373283 TC---CTTTGAGAAACTGCTTCTCCTTTACTCCATATAATTAGGGTGAAGCCACGAGTCCTATGATCCTGCCTTTCATGTCGTAAAAATGCACGTAAGACCTATGTTGGCCTATCTGTGTTAATTCCAT--------------CTCCTTAGATAC-GTGATTGTGTGGGGACAGGGATTAA-CAAGTGACT-AAGCAAAGCC-AGAATTCTTTCA---CTGATTAAGAATGCTAAAGACATTGTCTGAATGAAGTGACAAATATCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAGAAAAAAATCAGAGCTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATACATGTGCGGTGATGTGTGCGCATACACATCTAGACTTGCGTGAGT-TTGGCTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3443489 382 +   7543664 tc---ctttgagaaactgcttctcctttactccatataattagggtgaagccgcgagtcctatgatcctgcctttcatgtcataaagatgcacataagacccatgttggcctatctgtgttaattccat--------------ctccttagatac-gtgattgtttggggatagggattaa-caagtgact-aagcaaagcc-aGAATTCTTTAA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGTGACAAATATCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAG-AATAAATTAGAGCTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATATATGTTCAGTGATGTGTGTGCATGTGCATCTAGACTTGCGTGAGT-TTGGCTGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5215546 380 -  13750039 TC---CTTTGAGAAACTGCTTCTCCTTTACTCCATATAATTAGGGTGAAGCCACGAGTCCTATGATCCTGCCTTTCATGTCGTAAAGATGCACATAAGACCCATGTTGGCCTATCTGTGTTAATTTCAT--------------CTCCTTAGATTC-GTGATTGTGTGGGGATAGGGATTAA-CAAGTGACT-AAGCAAAGCC-AGAATTCTTTCA---CTGATTAAGAATGCTAAAGACGTTGTCTGAATGAAGTGACAAATATCAGTTTTAAAATTTAGAACAAATTGCCT----AAGAGGTTAGTATAG-AACATTTTAGAACTTATGGAGAGAGAA--------GTGTGAGGGTGTGAGAATATATG--CAGTGATGTGTGTGCATGTGCATCTAGACTTGCGTGAGT-TTGGCTGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26480232 385 +  50472720 AC---CTTTGAGAAACTGCTTCTCCTTTACTTCATATAATTAGGGTGAAGCCACGAGTCCGACGATCCTGATTTTCATGTCGTAAAGATGCATCTAAGACCCACATTGGCCTATTTGTGTCTATTCCAT--------------CTCCTTGGGTACTGTGATTGCATGAGGGTAGAGGTTAG-TAACTGACTCAGGCAAAGCCTAGAATTCTTTCA---CTGATGAAGAGTGCTAAAGATGTTGTCTGATTGAAGCTACAAATGGAAGTTTTAAAAATTAGAACAAATTGCTT----AAGAGGTTAGTATAG-AATAAATCAGAGCTTGTTGAGAGAGAA--------GTAGGAGGGTGTGAGAATATGTGTGCAGTTATGTATGTGCATGTGCATATAGACTTGCATGAGT-TTGGCTGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13899184 381 -  14377064 Ac---ctttgagaaactgcttctcctttactccatataattagggtgaagtcacgagtccaacgatcctgattttcatgtcgtaaagatgcatataagacccacgttggcctatttgtgtcagttccat--------------ctccttgggtactgtgattgtatgggggtaggggttag-taagtgactcaggcaaagcc-aGAATTCTTTCA---CTGAT---AAGAGCTAAAGATGTTGTCCGATTGAAGCTACAAATGGCAGTTTTAAAAATCAGAACAAATTGCTT----AAGAGGTTAGTATAG-AATAAATCAGAGCTTATTGAGAGAGAG--------GTATGAGGCTGTGACAATATGCGTGCAGTTATGTATGTGCACGTGCATATAGACTTGCATGAGT-TTGGCTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9133630 384 -   9889416 AC---CTTTGAGAAACTGCTTCTCCTTTACTCCATATAATTCGGGTGAAGCCACGAGTCTGACGATCCTGACATTCATGTCGTAAAGATGCATATAAGACCCACGTTGGTCTATTTGTGTCAGTTCCAT--------------CTCCTTGGGTACCGTGATTGTATGGGGATAGGGGTTTG-TAAGTGACTCAGGCAAAGCC-AGAATTCTTTCA---CTGATTAAGAGTGCTAAAGATGTTGTCTGACTGAAGCTACAAATGGCAGTTTAATAAATTAGAACAAATTGCTT----AAGAAGTTAGTATAG-AATAAATCAGAGCTTGTTGAGAGAGAA--------GTATGAGGGTGTGAGAATATGTGTGCAGTTATGTATGTGCATGTGCATATAGACTAGCATGAGT-TTGGCTGA
i aotNan1.NW_018487195v1    C 0 I 6
s otoGar3.GL873528           24842780 399 -  38779656 TCCTTCTTTGAATAACTGCCTCTCCTTTATTCCATGTAAGTAGGGTGAAGATATCAGTCCTGTCACTGCATTTTTCACATCATAAAGATGTAT-TGAGACCCAGGCTGGCCTCAGTGCATCCACCCCATTCCCTGCACCACTCCTCCTCGGGTGTAGTTACTGCATGAGGTGGGAGCT-----AAGTAACTCAGGCAGAAAA-ACAATTCTTTTA----GGGTTGAGAATGCTAAGGCTGCCATAAGCTTAAGGTGACAAGGGGAAGTTTCATAATATGAAGCCAATTGCCTAAGAAAGAGAAAAGTATAG-AAGAAAGCAGAACTTACGGAGAAAGAG--------GATTGAGGGTGTGACAATGTGTATGCAGTTTTGTGTATACTTGTGCATATGGATTTGTATGAGT-TTGGTTGA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2327694 393 +   3081153 tt---ccttgaggaactacctctcccttactccatataattagggtgtaactatcaatcccactgtcctgcctttcatgccttaaggatacatataagaaccaaacaggtttgtc--tataaatcccat--------------ctccttggatatagtgattgtac-----tagacagtagctaagtaactcaagtagaacc-aGAATTTTTTTTTTTCTGAGTGACTTTGCTAAAGATGTTATAT-ACCAAATTGACAAAGGGCAGTACCACGTTGTGGAACAAGTTGCCTGAGGAAGAGACAACTATAG-AAGAAAGCAGAGCTGATGGAGAGAGAATTAAAATGGTATGTGTTTATGAGAATGTTTGTGTAGCAAAGTGTGTGCATGTTTCTGTAGATATATATATATGTTAGTTGA
i dasNov3.JH578070          I 18 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e canFam3.chr31              18019959 651 +  39895921 I
e saiBol1.JH378168            8671459   0 +  13128814 C

a score=156722.000000
s hg38.chr21_GL383579v2_alt     77713 29 +    201197 -------AGGGTAAATATTTGATGATA--CTTTCtttg
s panTro5.chr21               8696406 29 +  33445071 -------AGGGTAAATATTTGATGATA--CTTTCtttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22235635 29 +  46275980 -------AGGGTAAATATTTGATGATA--CTTTCtttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8218176 29 -  13858734 -------AGGGTAAATATTTGATGATA--CTTTCtttg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9247569 29 +  32716333 -------AGGGTAAATATTTGATGATA--CTTTCtttg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160654113 25 - 185818997 -------AGGGTAAATATCTGATGAta------ctttg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167291074 25 - 192294377 -------AGGGTAAATATCTGATGAta------ctttg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4914930 25 -  30496662 -------AGGGTAAATATCTGATGAta------ctttg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13439747 25 +  21915920 -------AGGGTAAATATCTAATGAta------ctttg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19941217 25 -  90373283 -------AGGGTAAATATCTGATGAta------ctttg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3443871 25 +   7543664 -------AGGGTAAATATCTAATGAta------ctttg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5215926 25 -  13750039 -------AGGGTAAATACCTGATTAta------ctttg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26480617 28 +  50472720 -------AGGAAAAATATTCGATAATA--Tttag-ttt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13899565 29 -  14377064 -------AGGAAAAATATTTGATAATG--cttagtttt
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24843179 31 -  38779656 -------AGGGTGAAAATTTAAGGATGCtcttagtctg
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2328087 36 +   3081153 GTGGGGGTGTGTGAAACCTTGATATTA--TTTGATTTG
i dasNov3.JH578070          C 0 I 12
e micMur3.chr31              23669327 2409 +  47401472 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I
e saiBol1.JH378168            8671459  0 +  13128814 C

a score=1502005.000000
s hg38.chr21_GL383579v2_alt     77742 185 +    201197 ttcacactgcttgaacgaactaccacaagttg-gtagcttataaatgacagcaacttattt------ctcaaagttctgaaatctgggaagttcaaggtcaaggtg---------------------------------ctggtgagtattaatt-cttcaatgaccgaga---ttttgttgtgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
s panTro5.chr21               8696435 185 +  33445071 ttcacactgcttgaacgaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtattaact-cttcaatgaccgaga---ttttgttgtgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22235664 185 +  46275980 ttcacactgcttgaacgaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtattaact-cttcaatgaccgaga---ttttgttgtgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8218205 185 -  13858734 ttcacactgcttgaacgaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtattaatt-cttcaatgaccgaga---ttttgttgtgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9247598 185 +  32716333 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattgacagaga---ttttgttgtgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160654138 187 - 185818997 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattgacagagac-tttttgccacgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167291099 187 - 192294377 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattgacagagac-tttttgccacgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4914955 187 -  30496662 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattgacagagac-tttttgccacgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13439772 187 +  21915920 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttttgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcatcgacagagac-tttttgctgcgtttttacataatgaaaaggacacacaagcttgcttgggcctcttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19941242 187 -  90373283 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattaacagagac-tttttgctgcgtttttacatgatgaaaagggcacacaagcttgcttgggcctcttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3443896 187 +   7543664 ttcacactgcttgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcaaagttttgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattgacagagac-tttttgctgcgtttttacataatgaaaaggacacacaagcttgcttgggcctcttt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5215951 187 -  13750039 ttcacactgcttgaacaaaataccacaagtgg-gtagcttataaatgacagcaatttattt------ctcaaagttctgaaatctgggaagttcaagatcaaggtg---------------------------------ctggtgagtatttatt-cttcattaacagagac-tttttgctgtgtttttacataatgaaaagggcacacaagcttgcttgggcctcttt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26480645 188 +  50472720 ttcacactgattgaacaaaataccacaagttg-gtagcttataaatgacagcaatttattt------ctcgaagttcttaaatctgggaagttcaagatcaaggtg---------------------------------ctggagagtatttaat-cttcatcaacagaagcttttttgctgtgtttttacataatgaaaagggcacacaaacttgcttgggcctgttt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13899594 188 -  14377064 ttcacactgattgaacaaaataccacaagttg-gtagcttataaatgactgtaatttattt------ctcaaagttcttaaatctgggaagttcaagatcaaggta---------------------------------ctggtgagtatttatt-cttcatcaacagaatcttttctgctgtgtttttacatggtgaaaagggcacacaagcttgcttgggtctgttt
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24843210 228 -  38779656 tccaagcagctatcacaaaattccagaaactgaacagttcataagtgacagaaatttatctgtaatattcatagttctggaggttgggaagtccaagattaaagcactgccagattttaaggctctgccagattagtgtctggtggggacctgttcctccatagacaaagac-tctggggtgtgtctttccatcatgaaaggaacaaccaaactcccaggggcctcttt
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123  12 +   3081153 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e saiBol1.JH378168            8671459   0 +  13128814 C

a score=5621021.000000
s hg38.chr21_GL383579v2_alt     77927 677 +    201197  
s panTro5.chr21               8696620 677 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22235849 677 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8218390 678 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9247783 679 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160654325 681 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167291286 682 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4915142 682 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13439959 682 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19941429 681 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3444083 682 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5216138 685 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26480833 671 +  50472720  
i calJac3.chr21             C 0 I 101
s saiBol1.JH378168            8671459 676 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13899782 672 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24843438 689 -  38779656  
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123  12 +   3081153 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I

a score=138235.000000
s hg38.chr21_GL383579v2_alt     78604 17 +    201197 aattcttttagataaat
s panTro5.chr21               8697297 17 +  33445071 aattcttttagatgaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22236526 17 +  46275980 aattcttttagatgaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219068 17 -  13858734 aattcttttagataaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9248462 17 +  32716333 aattcttttagataaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655006 17 - 185818997 aattcttttagataaat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167291968 17 - 192294377 aattcttttagataaat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4915824 17 -  30496662 aattcttttagataaat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13440641 17 +  21915920 aattcttttagataaat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19942110 17 -  90373283 aattcttttagataaat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3444765 17 +   7543664 aattcttttagataaat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5216823 17 -  13750039 aattcttttagataaat
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8672135 17 +  13128814 aattattttagaaaaat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13900454 17 -  14377064 aattattttacaaaaat
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844127 17 -  38779656 tattctttttgatcaat
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123 12 +   3081153 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I
e calJac3.chr21              26481504 101 +  50472720 I

a score=6960.000000
s hg38.chr21_GL383579v2_alt     78621 5 +    201197 attca
s panTro5.chr21               8697314 5 +  33445071 attca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22236543 5 +  46275980 attca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219085 5 -  13858734 attca
i gorGor5.CYUI01015003v1    C 0 C 0
s cebCap1.NW_016107322v1     13900471 5 -  14377064 attca
i cebCap1.NW_016107322v1    C 0 I 25
s otoGar3.GL873528           24844144 5 -  38779656 attca
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123 12 +   3081153 I
e cerAty1.NW_012002954v1     13440658 0 +  21915920 C
e macNem1.NW_012015021v1      4915841 0 -  30496662 C
e macFas5.chr3              167291985 0 - 192294377 C
e rheMac8.chr3              160655023 0 - 185818997 C
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e calJac3.chr21              26481504 101 +  50472720 I
e saiBol1.JH378168            8672152 0 +  13128814 C
e colAng1.NW_012120598v1      5216840 0 -  13750039 C
e manLeu1.NW_012103476v1      3444782 0 +   7543664 C
e chlSab2.chr2               19942127 0 -  90373283 C
e nomLeu3.chr25               9248479 0 +  32716333 C

a score=1000.000000
s hg38.chr21_GL383579v2_alt     78626 1 +    201197 g
s panTro5.chr21               8697319 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22236548 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219090 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24844149 1 -  38779656 g
i otoGar3.GL873528          C 0 I 65
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123 12 +   3081153 I
e cerAty1.NW_012002954v1     13440658 0 +  21915920 C
e macNem1.NW_012015021v1      4915841 0 -  30496662 C
e macFas5.chr3              167291985 0 - 192294377 C
e rheMac8.chr3              160655023 0 - 185818997 C
e cebCap1.NW_016107322v1     13900476 25 -  14377064 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e calJac3.chr21              26481504 101 +  50472720 I
e saiBol1.JH378168            8672152 0 +  13128814 C
e colAng1.NW_012120598v1      5216840 0 -  13750039 C
e manLeu1.NW_012103476v1      3444782 0 +   7543664 C
e chlSab2.chr2               19942127 0 -  90373283 C
e nomLeu3.chr25               9248479 0 +  32716333 C

a score=269702.000000
s hg38.chr21_GL383579v2_alt     78627 497 +    201197 tatatacccaaaggactataaatcatactgctataaagacacatgcacacgtatgtttattgcggcattattcacaatagcaaagacttggaaccaacccaaatgtccaacaatgatagactagattaagaaaatgtggcacatatacaccatggcatactatgcagccataaaaaatgatgagttcatgtcctttgtagggacatggatgaaattggaaatcatcattctcggtaaactatcgcaagaacaaaaaaccaaacaccgcatattctcactcataggtgggaattgaacaatgagatcacatggacacaagaaggggaacatcacactctggtgactgttgtggggtggggggacgggggagggatagcatcgggagatatacctaatgctagatgaggagttagtgggtgcagcgcaccagcatggcacatgtatacatatgtaactaacctgcacaatgtgcacatgtaccctaaaacttaaagtat
s panTro5.chr21               8697320 497 +  33445071 tatatacccaaaggactataaatcatactgctataaagacacatgcacacgtatgtttactgcggcattattcacaatagcaaagacttggaaccaacccaaatgtccaacaatgatagactagattaagaaaatgtggcacatatacaccatggaatactatgcagccataaaaaatgatgagttcatgtcctttgtagggacatggatgaaattggaaatcatccttctcagtaaactatcgcaagaacaaaaaaccaaacaccgcatattctcactcataggtgggaattgaacaataagatcacatggacacaggaaggggaacatcacactctggtgactgttgtggggtgggggcaggggggagggatagcattgggagatatacctaatgctagatgaggagttagtgggtgcagcgcaccagcatggcacatgtatacatatgtaactaacctgcacaatgtgcacatgtaccctaaaacttaaagtat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22236549 497 +  46275980 tatatacccaaagaactataaatcatactgctataaagacacatgcacacgtatgtttactgcggcattattcacaatagcaaagacttggaaccaacccaaatgtccaacaatgatagactagattaagaaaatgtggcacatatacaccatggaatactatgcagccataaaaaatgatgagttcatgtcctttgtagggacatggatgaaattggaaatcatcattctcagtaaactatcgcaagaacaaaaaaccaaacaccgcatattctcactcttaggtgggaattgaacaataagatcacatggacacaggaaggggaacatcacactctggtgactgttgtggggtggggggaggggggagggatagcattgggagatatacctaatgctagatgaggagttagtgggtgcagcgcaccagcatggcacatgtatacatatgtaactaacctgcacaatgtgcacatgtaccctaaaacttaaagtat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219091 496 -  13858734 tatatatccaaaggactataaatcatactgctataaagacacatgcacacgtatgtttattgcggcattattcacaatagcaaagacttggaaccaacccaaatgtccaac-atgatagactggattaagaaaatgtggcacatatacaccatggaatactatgcagccctaaaaaatgatgagttcatgtcctttgtagggacatggatgaaattggaaatcatcattctcagtaaactatcacaagaacaaaaaaccaaacactgcatattctcactcataggtgggaattgaacaatgagatcgcatggacacaggaaggggaacatcacactctggggactgttgtggggtggggggaggggggaaggatagcattgggagatatacttaatgctagatgacaagttagtgggtgcagcgcaccagcatggcacatgtatacatatgtaactaacctgcacaatgtgcacatgtaccccaaaacttaaagtat
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123  12 +   3081153 I
e cerAty1.NW_012002954v1     13440658   0 +  21915920 C
e macNem1.NW_012015021v1      4915841   0 -  30496662 C
e macFas5.chr3              167291985   0 - 192294377 C
e rheMac8.chr3              160655023   0 - 185818997 C
e cebCap1.NW_016107322v1     13900476  25 -  14377064 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e calJac3.chr21              26481504 101 +  50472720 I
e saiBol1.JH378168            8672152   0 +  13128814 C
e otoGar3.GL873528           24844150  65 -  38779656 I
e colAng1.NW_012120598v1      5216840   0 -  13750039 C
e manLeu1.NW_012103476v1      3444782   0 +   7543664 C
e chlSab2.chr2               19942127   0 -  90373283 C
e nomLeu3.chr25               9248479   0 +  32716333 C

a score=7267.000000
s hg38.chr21_GL383579v2_alt     79124 24 +    201197 aataataaaaa-aaataaaaataaa
s panTro5.chr21               8697817 20 +  33445071 aataataaaaa-----aaaagtaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237046 20 +  46275980 aataataataa-----aaaagtaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219587 24 -  13858734 aataataaaaaaaaataaaaat-aa
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26481605 22 +  50472720 aaaaataaaag-aaagaaaaata--
i calJac3.chr21             I 101 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123 12 +   3081153 I
e cerAty1.NW_012002954v1     13440658  0 +  21915920 C
e macNem1.NW_012015021v1      4915841  0 -  30496662 C
e macFas5.chr3              167291985  0 - 192294377 C
e rheMac8.chr3              160655023  0 - 185818997 C
e cebCap1.NW_016107322v1     13900476 25 -  14377064 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I
e saiBol1.JH378168            8672152  0 +  13128814 C
e otoGar3.GL873528           24844150 65 -  38779656 I
e colAng1.NW_012120598v1      5216840  0 -  13750039 C
e manLeu1.NW_012103476v1      3444782  0 +   7543664 C
e chlSab2.chr2               19942127  0 -  90373283 C
e nomLeu3.chr25               9248479  0 +  32716333 C

a score=303738.000000
s hg38.chr21_GL383579v2_alt     79148 49 +    201197 attcaaaagtgggattgctggattatataatagttctattttacagtta
s panTro5.chr21               8697837 49 +  33445071 attcaaaagtgggattgctggattatataatagttctattttacagtta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237066 49 +  46275980 attcaaaagtgggattgctggattatataatagttctattttacagtta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219611 49 -  13858734 attcaaaagtgggattgctggattatataatagttctattttacagtta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9248479 49 +  32716333 attcaaaagtgggactgctggattatataatagttctattttacggtta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655023 49 - 185818997 attcaaaagtgggattgctggattatataataggtctattttatggtta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167291985 49 - 192294377 attcaaaagtgggattgctggattatataataggtctattttatggtta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4915841 49 -  30496662 attcaaaagtgggattgctggattatataataggtctattttatggtta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13440658 49 +  21915920 attcaaaagtgggattgctggattatataataggtctattttatgatta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19942127 49 -  90373283 attcaaaagtgggattgctggattatataataggtctattttatggtta
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3444782 49 +   7543664 attcaaaagtgggattgctggattatataataggtctattttatggtta
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5216840 49 -  13750039 attcaaaagtgggattgttggattatataataggtctattttatggtta
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26481627 29 +  50472720 -ttcaaaagtaggattgctg-------------------catatggttc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8672152 30 +  13128814 attcaaaagtgcaattgctg-------------------tgcatgattt
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123 12 +   3081153 I
e cebCap1.NW_016107322v1     13900476 25 -  14377064 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I
e otoGar3.GL873528           24844150 65 -  38779656 I

a score=3483665.000000
s hg38.chr21_GL383579v2_alt     79197 435 +    201197 tgtggaatatccatattgttttatatagcttctgtaccatgttgccttctcaccaacagtgtgcatgggttctagtttctctatatccttaaaaatatttgctgtgctt------------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatgtctaagatgctatgtcattgtgctttttatttgca-tttccctgatgaatagtgaggttgaaca-tttttaaatatacttattggtca-tttgtatgtcttctctggagacatgtctgttcaaactttt-ccgtatttttaaaacagattactgacttatttaccattgcattgtaggagttccttatatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgctatttcgtaggttgtcttttcactccattgattgctt-cctttcctgtgcagtg
s panTro5.chr21               8697886 433 +  33445071 tgtggaatatccatattgttttatatagcttctgtaccatgttgccttctcaccaacagtgtgcatgggttctagtttctctatatgcttaaaaatatttgctgtgc--------------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatgtctaagatgctatgtcattgtgctttttatttgca-tttccctgatgaatagtgaggttgaaca-tttttaaatatacttattggtca-tttgtatgtcttctttggagacatgtctgttcaaactttt-ccgtatttttaaaacagattactgatttatttaccattgcattgtaggagttccttatatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgctatttcgtaggttgtcttttcactccattgattgctt-cctttcctgtgcagtg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237115 434 +  46275980 tgtggaatatccatattgttttatatagcttctgtaccatgttgccttctcaccaacagtgtgcatgggttctagtttctctatatccttaaaaatatttgctgtgc-t------------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatgtctaagatgctatgtcattgtgctttttatttgca-tttccctgatgaatagtgaggttgaaca-tttttaaatatacttattggtca-tttgtatgtcttctttggagacatgtctgttcaaactttt-ctgtatttttaaaacagattactgatttatttaccattgcattgtaggagttccttatatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgctatttcgtaggttgtcttttcactccattgattgctt-cctttcctgtgcagTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8219660 434 -  13858734 tgtggaatatccatattgttttatatagcttctgtaccatgttgccttctcaccaacagtgtgcatgggttctagtttctctatatccttaaaaatatttgctgtgctt------------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatgtctaagatgctatgtcattgtgctttttatttgca-tttccctgatgaatagtgaggttgaaca-tttttaaatatactta-tggtca-tttgtatgtcttctttggagacatgtctgttcaatctttt-ccctatttttaaaacagattattgatttatttaccattgcattgtaggagttccttatatactttggaaattaattgctt--attagaaatatggttggcaaatattttacgctatttcgtaggttgtcttttcactccattgattgctt-cctttcctgtgcagtg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9248528 434 +  32716333 tgtggaatatccatattgttttatatcgcttctgtaccatgttgccttctcaccaacagtgtgcatggattctagtttctctacatcctt-aaaatatttgctgtgc----------------------ttttttt-----------------------t------------------tttta-acagtagccttcctgacatgtctaaggtgctatgtcattgtgctttttatttgcattttccctgatgaatagtgaggttgaaca-tttttaaatatacttactggtcattttgtatgtcttctttgaaaaaatgtctgttcaatcttttcccctatttttaaaacagattactgatttttttaccattgcattg-aggagttcctaatatactttggaaattaattcccttaattagtaaaatggttggcaaacattttaccccatttcttatgttgtcttttccctccattgattgcttccctttcctgtgcaATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655072 453 - 185818997 tgtggaatatccatattgttttatatagcttctgcactatgttgccttctcaccaacagtgtgcatgggttctagtttctccacatccttaaaaatatttgctgagtttttttgtttgtttgttttgttttgtttt-----------------------t------------------ttttacataatagccttcctgacatatctaaggtgctatgccattgagatttttatttgca-tttccctgatgaatagtgaggttgaaca-tttttaaatatacttattggtca-cttgtatgtcttctttggagacatgtctgtttgatctttt-ccctatttttaaagcaggttactgatttacttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatggttggcaaatatttgatgccatttcatacgttgccttttcactccactgattgctt-cctttcctgtgcagTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292034 438 - 192294377 tgtggaatatccatattgttttatatagcttctgcactatgttgccttctcaccaacagtgtgcatgggttccagtttctccacatccttaaaaataattgctgagttttttt--------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatatctaaggtgctatgccattgagatttttatttgca-tttccctgatg-atagtgaggttgaaca-ttttttaatatacttattggtca-cttgtatgtcctctttggagacatgtctgtttgatctttt-ccctatttttaaagcaggttactgatttatttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatgattggcaaatattttacgccatttcatacgttgccttttcactccactgattgctt-cctttcctgtgcagTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4915890 438 -  30496662 tgtggaatatccatattgttttatatagcttctgcactatgttgccttctcaccaacagtgtgcatgggttctagtttctccacatccttaaaaatatttgctgagttttttt--------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatatctaaggtgctatgccattgagatttttatttgca-tttccctgatg-atagtgaggttgaaca-ttttttaatatacttattggtca-cttgtatgtcttctttggagacatgtctgtttgatctttt-ccctatttttaaagcaggttactgatttatttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgccatttcatacgttgccttttcactccactgattgctt-cctttcctgtgcagTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13440707 447 +  21915920 tgtggaatatccatattgttttatgtagcttctgcaccatgttgccttctcaccaacagtgtgcatgggttctagtttctacacaaccttaaaaatatttgctgagttttttg-tttgtttg-----tttgtttgt-----------------------t------------------tttcacataatagccttcccgacatgtctaaggtgctatgccattgtgctttttatttgca-tttccctgatgaatagtgaggttgaaca-ttttttaatatacttattggtca-cttgtatgtcttctttggagacatgtctgtttgatctttt-ccctatttttaaagcaggttactgatttatttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgccatttcatacgttgccttttcactccactgattgctt-cctttcctgtgcagtg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19942176 435 -  90373283 tgtggaatatccatattgttttatatagcttctgcaccatgttgccttctcaccaacagtgtgcatgggttctagtttctctacatccttaaaaatatttgctgagttttgtt--------------ttttttttt-----------------------t-----------------------cataatagccttcctgacatgtctaaggtgctatgccattgtgctttttatttgca-tttccctgatgaatagtgaggttgaacatttttttaatatacttattggtca-cttgtatgtcttctttggagacatgtctgtttgaactttt-ctctatttgtaaagcaggttactgatttatttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatggttggccaatattttatgccatttcataggttgccttttcactccaccgattgctt-cctttcctgtgcagtg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3444831 457 +   7543664 tgtggaatatccatattgttttatatagcttctgcactatgttgccttctcaccaacagtgtgcatgggttctagtttctccacatccttaaaaatatttgctgagttttttt--------------ttttttttt-----------------------ttgttgttgttgttgtttttttaacataatagccttcctgacatatctaaggtgctatgccattgtgctttttatttgca-tttccctgatgaatagtgaggttgaaca-ttttttaatatacttattggtca-cttgtatgtcttctttggagacatgtctgtttgatctttt-ccctatttttaaagcaggttactgatttatttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgccatttcatacgttgccttttcactccactgattgttt-cctttcctgtgcagtg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5216889 441 -  13750039 tgtggaatatccatagtgttttatatagcttctgcaccatgttgccttttcgccaacagcgtgcatgggttctcatttgtctacatccttaaaaatatttgctgagtttttttgt------------ttttttttt-----------------------t------------------ttttacataatagccttcctgacatgtctaaggtgctatgccattgtgctttttatttgca-tttccctaatgaatagtgaggttgaaca-ttttttaatatacttattggtca-cttgtatatcttctttggtgacatgtctgtttgaactttt-ccctatttgtaaagcaggttactgatttatttactattgcattgtaggagttccttacatactttggaaattaattcctt--attagaaatatggttggcaaatattttacgtcatttcataagttgccttttcactctaccaattgctt-cctttcctgtgcagtg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26481656 463 +  50472720 tgtggaatatccatattg-tttttataacttctgtaccatgttgcattctcaccagcagtgtgcatgggttccaatttctctacatccttgaaaatatttgttgtccatttattta-----------tttatttatttatttatttatttatttatttat------------------ttttacatagtagtgttcctgacatgtctaaggtgccatgggactgtgctttttatttgca-tttccctgatgaatcgtgaggttgaaca-tttttaaatatagttgttggtca-tctgtatgccttctttggagacatgtctgttcaatgtttt-gcctacttttaaaacagattattgatttatttactattacattgtaggaattccttacatactttgaagattaattcctt--attag-aatatggctgacagacattttatgtcatttcagaggctgccttttcacttccttgatttgtt-cttttactgtacTGTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8672182 442 +  13128814 tgtggaatatccatattgttttttatagcttctgcaccatgttgccttcttaccagcagtgtgcatgggttccaatttctccacatccttgaaaatatttgttatccttttattta-----------tttatttat-----------------------t------------------ttttacataatagcgttcctgacatttctaaggtgccatggaattgtgctttttatttgca-tttccctgatgaatcgtgaggttgaaca-cttttaaatatagttattggcca-tctgtatgccttctttggagacatgtctgttcaatgtttt-gcctatttttaagacagattactgatttatttattattacattgtaggagtttcttatatactttggagattaattcctc--attagaaatacggctgataaatattttatgtcatttcataggctgccttttcactccattgaattgtt-cttttgctgtgcattg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13900501 446 -  14377064 tgtggaatatccatattgttttttatagcttctgtaccatgttgcattctcaccagcagtgtgcatgggttccaatttctctacatccttgaaaatattagttatccttttattta-----------tttatttatttat-------------------t------------------ttttacataatagcgttcctgacatttctaaggtgccatggaattgtgctttttatttgca-tttccctgatgaatcgtgaggctgaaca-tttttaaatatagttattggtca-tttatatgccttctttggagacatgcctgttcaatgtttt-gcctatttttaaaacagatcactgatttatttactattacattgtaggagttccttatatactttggagattaatttctt--attagaaatatgactgacaaatattttatgtcatttcataggctgccttttcactccattgaattgtt-cttttgctgtTTATTG
i cebCap1.NW_016107322v1    I 25 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328123  12 +   3081153 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e otoGar3.GL873528           24844150  65 -  38779656 I

a score=1023782.000000
s hg38.chr21_GL383579v2_alt     79632 135 +    201197 aataaagc--cactttgatttaa---atttatgagttaagtttttgttttgtgttTTACTTCATGTTTTTTAA-AAGTTGATTTAAGTTTAATATCTATTACTAGGAAGCTTTATTAATTCGAAATTATACTCCCAACTCA
s panTro5.chr21               8698319 134 +  33445071 aataaagt--cactttgatttaa---atttatgagttaagtttttg-tttgtgttTTACTTCATGTTTTTTAA-AAGTTGATTTAAGTTTAATATCTATTACTAGGAAGCTTTATTAATTCAAAATTATACTCCCAACTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237549 130 +  46275980 AATAAAGT--CACTTTGATTTAA---ATTTATGAGTTAAGTT-----TTTGTGTTTTACTTCATGTTTTTTAA-AAGTTGATTTAAGTTTAATATCTATTACTAGGAAACTTTATTAATTCAAAATTATACTCCCAACTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220094 135 -  13858734 aataaagc--cacttcaatttcc---atttatgaattaagtttttgttttgtgttTTACTTCACATTTTTTAA-AAGTTGATTTAAGTTTAATATCTATTACTAGGAAGCTTTATTAATTCGAAATTATACTCCCAACTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9248962 136 +  32716333 AATAATCCCACACTTTGAAAC-C---ATTCATGAGTTAAGTTTTTGTTTTGTGCTTTACTTTGCATTTTTTAA-AAGTTGATTTAAATATAATATCTATTACTAGGATGCTTTATTAATTTGAAATTATACTCCCAACTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655525 135 - 185818997 AATAAAGC--CACTTCGATTTCC---ATTAATTAGTTAAGTTTTTGTTTTGTGTTTTACTTTAAATTTTTTAA-AAGTTGGTTTAAATTTAATGTCTATTAATAGGAAGCTTTATTAATTTGAAATTGAACTCTCAACTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292472 135 - 192294377 AATAAAGC--CACTTCGATTTCC---ATTAATTAGTTAAGTTTTTGTTTTGTGTTTTACTTTAAATTTTTTAA-AAGTTGGTTTAAATTTAATGTCTATTAATAGCAAGCTTTATTAATTTGAAATTGAACTCTCAACTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916328 135 -  30496662 AATAAAGC--CACTTCGATTTCC---ATTAATTAGTTAAGTTTTTGTTTTGTGTTTTACTTTAAATTTTTTAA-AAGTTGGTTTAAATTTAATGTCTATTAATAGCAAGCTTTATTAATTTGAAATTGAACTCTCAACTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441154 135 +  21915920 aataaagc--cactttgatttcc---attaattagttaagtttttgttttgtgttttactttAAATTTTTTAA-AAGTTGGTTTAAATTTAATGTCTATTAATAGCAAGCTTTATTAATTTGAAACTGAACTCTCAACTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19942611 130 -  90373283 aataaagc--cactttgatttcc---attaattagttaagtttttgttttgtgt-----tttaaattttttaa-aagttggtttaaattTAATGTCTATTAATAACAAGCTTCATTAATTTGAAATTGAACTCTCAACTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3445288 135 +   7543664 aataaagc--cactttgatttcc---attaattagttaagtttttgttttgtgttttACTTTAAATTTTTTAA-AAGTTGTTTTAAATTTAATGTCTATTAATAGCAAGCTTTATTAATTTGAAATTGAACTCTCAACTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217330 130 -  13750039 aataaagc--cactttgatttcc---attaattagttaagtttttgttttgtgttttACTTTAAATTTTTTAA-AAGTTGGTTTAAATTTAATGTCTATTAATAGCAAGCTTTATTAATTTGAAATTGAACT-----CTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482119 136 +  50472720 GATAAAGT--CACTTTTATTTTC---ATTCATGAGTTATGTTTCTGTTTAGTGTTTTACTTTTCATTTTTTAAGAAGTTGGTTTAAGTTTAGTATCTATCACTAGCAAGCTATATTAATTAGAAATTATACTCCCAACTTA
i calJac3.chr21             C 0 I 101
s saiBol1.JH378168            8672624 131 +  13128814 gataaagt--cacttttattttc---attcatgagttacatttttgttttgtgttttact-----ttttttaagaagttggtTTAAGTTTAGTATCTGTTACTAGCAAGCTTTATTAATTAGAAATTATACTCCCAACTCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13900947 136 -  14377064 GATAAAGT--CACttttattttc---attcatgagttacatttttgttttatgttttacttttcattttttaAGAAGTTGGTTTAAGTTTAGTATCTATTACTAGCGAGCTTTATTAATTAGAAATTATACTCCCAACTCA
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2328135 138 +   3081153 AATAAATT--C-CTTTGATTTCCCTAGTTCATGAACCAACACAATATGTGTTATTTTGTTCTATATTTCTTCAGAAGCTGATTCAAATTTCATATCTCTATCTAGCAACTTTTGCTAATTGTGAATCACATTACCTGTTCA
i dasNov3.JH578070          I 12 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e otoGar3.GL873528           24844150  65 -  38779656 I

a score=855825.000000
s hg38.chr21_GL383579v2_alt     79767 115 +    201197 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTTTTTATGAACTACAACTACAATATGTGAATGCCATTTTTGTTTTTCT-CCTAAATGTCACT
s panTro5.chr21               8698453 115 +  33445071 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTTTTTATGAACTACAACTACAATATGTGAGTGCCATTTTTGTTTTTCT-CCTAAATGTCATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237679 115 +  46275980 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTACTTTTTATGAACTACAACTACAATATGTGAGTGCCATTTTTGTTTTTCT-CCTAAATGTCATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220229 115 -  13858734 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTTTTTATGAACTACAACTACAATATGTGAGTGCCATTTTTGTTTTTCT-CCTAAATGTCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249098 109 +  32716333 ATAAAACATTTTAAAGATTATCTGACCATTAAAATGCAGTAACAATAGTATTATTTTTTATG------AACTACAATATGTGAGTACCATTTTTGTTTTTCT-CCTAAATGTCACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655660 114 - 185818997 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTGTTT-TTAACTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-CCTAAATGTCATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292607 114 - 192294377 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTGTTT-TTAACTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-CCTAAATGTCATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916463 114 -  30496662 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTGTTT-TTAACTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-CCTAAATGTCATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441289 115 +  21915920 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTTTTTATGAGCTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-CCTAAATGTCATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19942741 115 -  90373283 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAAGAGTATTATTGTTTATTAACTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-CCTAAATGTCATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3445423 114 +   7543664 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATT-TTTATGAGCTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-cctaaatgtcatt
i manLeu1.NW_012103476v1    C 0 I 908
s colAng1.NW_012120598v1      5217460 115 -  13750039 ATAAAATATTTTAAAGATTATCTGACAATTAAAATGCTGTAACAATAGTATTATTGTTTATAAACTACAACTATAATATATGAGTACCGTTTTTGTTTTTCT-CCTAAATGTCACT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8672755 113 +  13128814 ATAAAATATTTTAAAGATTATCTCACAATTAAAATGCTGTAACAATAGTATTA--TTTTGTGAGCTACAACTGCAATATGTAAATACTGTTTTCATTTTTCT-CCTTAATGTCATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901083 114 -  14377064 ATAAAATATTTTAAAGATTATCTCACAATTAAAATGCTGTAACAATAGTATTA-TTTTTATGAGCTACAACTACAATATGTAAATACTGTTTTCATTTTTCT-CCTTAATGTCATT
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2328273 114 +   3081153 ATAAAAAGTTTTAAAGCATTTCTGAAGATTAAATGACTATAACAAT--TATTCTTCTATTTAAAGTGAAATTATATGAAATTGGTAGTGATATATTTAAACTGACTAAAGGTCAGT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I
e otoGar3.GL873528           24844150  65 -  38779656 I

a score=1337763.000000
s hg38.chr21_GL383579v2_alt     79882 186 +    201197 ----GAAAAAAAGGAGAACATTTTTGCCTCAAAATGTATATTTATGTGTTCCTTCCCATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGGTTTTGT-TCTAACTC--TGTATGTGTGCAGTAA---ATACATTATTAAG-AATTTA-------TTATATACTagatagagaaag-aaactga----------aagccagacagac
s panTro5.chr21               8698568 186 +  33445071 ----GAAAAAAAGGAGAACATTTTTGCCTCAAAATGTACATTTATGTGCATTTTCCCATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTATGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTATATACTagatagagaaag-aaactga----------aagccagacagac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237794 186 +  46275980 ----GAAAAAAAGGAGAACATTTTTGCCTCAAAATGTACATTTATGTGCATTTTCCCATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTATGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTATATACTagatagagaaag-aaactga----------aagccagacagac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220344 184 -  13858734 ----GAAAAAAAGGAGAACATTTTTGCCTCAAAATGTATATTTATGTGTTCCTTCCCATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTATGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTATATACTagatagagaaag-aaactga----------aagccagacag--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249207 182 +  32716333 ----GAAAAAAAGGAGAACATTTTTGCCTCAAAATGTATATTTATGTGTTCCTTCCCATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCCTAA------AGATTTTGT-TCTAA--C--TGTATGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTGTATACTAGATAGag--ag-agactga----------aagccagccagac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655774 180 - 185818997 ----GAAAAAAAGCAGAACATTTTTGCCTCAAAATGTATA------TGTTCCTTCCTATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTGTGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292721 182 - 192294377 ----GAAAAAAAGCAGAACATTTTTGCCTCAAAATGTATA------TGTTCCTTCCTATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTCTGTGTGTGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916577 186 -  30496662 ----GAAAAAAAGCAGAACATTTTTGCCTCAAAATGTATATGTATGTGTTCCTTCCTATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTGTGTGTGCAATAA---ATACATTATTAAT-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGTCAGCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441404 186 +  21915920 ----GAAAAAAAGCAGAACATTTTTGCCTCAAAATGTATATGTATGTGTTCCTTCCTATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTGTGTGTGCAATAA---ATACATTTTTGAG-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19942856 186 -  90373283 ----GAAAAAAAGGAGAACATTTTTGCCTCAAAATGTATATGTATGTGTTCCTTCCTATAAT-----AAAGTAACACTTCAGAATAGCCAACTTTACCTTTA------AGATTTTGT-TCTAACTC--TGTGTGTGTGCAATAA---ATACATTATTAAG-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446445 186 +   7543664 ----gaaaaaaaGCAGAACATTTTTGCCTCAAAATGTATATGTATGTGTTCCTTCCTATAAT-----AAAATAACACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTGTGTGTGCAATAA---ATACGTTTTTAAG-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGCC
i manLeu1.NW_012103476v1    I 908 C 0
s colAng1.NW_012120598v1      5217575 185 -  13750039 -----GAAAAAAGGAGAACATTTTTGCCTCAAAATGTGTATGTATGTGTTCCTTCCTATAAT-----AAAATAGCACTTCAGAATAGCCAACTTTACCTTAA------AGATTTTGT-TCTAACTC--TGTGTGTGTGTAATAA---ATACATTATTAAG-AATTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGCC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8672868 182 +  13128814 ---------AAAAAAGAATATTTTT-CCTCAAAATGTATATTTACATGTT-CTTCCTATAATTAAACAAAA-AAAACTTCAGAATAGCCAATTTTACCTTAA------A--TTTTAT-TTTAAATC--TCTGTGTGTGCAATAA---GTACATTATTAAGAATTTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AGGCCAGCCAGAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901197 179 -  14377064 -------TAAAAAAAGAACATTTTTGCCTCAAAATGTATATTTACATGTT-CTTCCTATAAT-----AAAA-AAAACTTCAGAATAGCCAACTTTACCTTAA------A--TTTTAT-TTTAAATC--TCTGTGTGAGCAATAA---ATATATTATTAAG-ACTTTA-------TTATATACTAGATAGAGAAAG-AGACTGA----------AAGCCAGCCAGAC
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2328387 211 +   3081153 GGAACAAAGAACATAGAATATTTCCTCTTCAGAATATATATTTACATGTTCTT-------GT-----AAGATGCCACTTTGGAATTGCCTATTTTACCTTAAGtaaataaatattatatttataGG--TATATATATGTAATGAAACATATTTTATTAAG-AATGTAATATACCTTGTAAACTGAAAAAATAATGAAGACTGAATAAGTTAAGAAGTTGGACAGGT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e canFam3.chr31              18019959 651 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I
e otoGar3.GL873528           24844150  65 -  38779656 I

a score=47303.000000
s hg38.chr21_GL383579v2_alt     80068 7 +    201197 agacaga
s panTro5.chr21               8698754 7 +  33445071 agacaga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237980 7 +  46275980 agacaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220528 7 -  13858734 agacaga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249389 7 +  32716333 agacaga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655954 7 - 185818997 AGACACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292903 7 - 192294377 AGACACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916763 7 -  30496662 AGACACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441590 7 +  21915920 AGACACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943042 7 -  90373283 AGACACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446631 7 +   7543664 AGACACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217760 7 -  13750039 AGACACA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673050 7 +  13128814 AGATTGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901376 7 -  14377064 AGATTGA
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18020610 7 +  39895921 AGAGAAG
i canFam3.chr31             I 651 C 0
s dasNov3.JH578070            2328598 7 +   3081153 AGAGAGA
i dasNov3.JH578070          C 0 I 1557
e micMur3.chr31              23669327 2409 +  47401472 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I
e otoGar3.GL873528           24844150 65 -  38779656 I

a score=18327.000000
s hg38.chr21_GL383579v2_alt     80075 3 +    201197 GGT
s panTro5.chr21               8698761 3 +  33445071 GGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237987 3 +  46275980 GGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220535 3 -  13858734 gGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249396 3 +  32716333 GGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655961 3 - 185818997 AGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292910 3 - 192294377 AGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916770 3 -  30496662 AGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441597 3 +  21915920 AGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943049 3 -  90373283 AGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446638 3 +   7543664 AGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217767 3 -  13750039 AGT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673057 3 +  13128814 AGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901383 3 -  14377064 AGT
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18020617 3 +  39895921 GAA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e dasNov3.JH578070            2328605 1557 +   3081153 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I
e otoGar3.GL873528           24844150 65 -  38779656 I

a score=708541.000000
s hg38.chr21_GL383579v2_alt     80078 90 +    201197 TACAACCTTCCTTTGTACTTGTGGAGCAGTCGGGGAAATGGTACAAAGAAAGTAAGAAGGAATTCAATAAAAAGAAGTCAATAGACTAAA
s panTro5.chr21               8698764 90 +  33445071 TACAACCTTCCTTTGTACTTGTGGAGCAGTCGGGGAAATGGTACAAAGAAAGTAAGAAGGAATTCAATAAAAAGAAGTCAATAGACTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22237990 90 +  46275980 TACAACCTTCCTTTGTACTTGTGGAGCAGTCGGGGAAATGGTACAAAGAAAGTAAGAAGGAATTCAATAAAAAGAAGTCAATAGACTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220538 90 -  13858734 TACAACCTTCCTTTGTACTTGTGGAGTAGTCGAGGAAATGGTACAAAGAAAGTAAGAAGGAATTCAATAAAAAGAAGTCAATAGACTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249399 90 +  32716333 TACAACCTTCCTTTGTACTTGTGCAGTAGTCGAGGAAATGGTACAAAGAAAGTAAGAAGGAATTCAGTAAAAAGAATTCAATAGACTAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160655964 90 - 185818997 TACAGCCTTCCTTTGTACTCAGGGAGTAGTTGAGGAAATGGTACAAAAAAAGTAAGAAGGAATTCAATAAAAATAATTCAATAGACTAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167292913 90 - 192294377 TACAGCCTTCCTTTGTACTCAGGGAGTAGTTGAGGAAATGGTACAAAAAAAGTAAGAAGGAATTCAATAAAAATAATTCAATAGACTAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916773 90 -  30496662 TACAGCCTTCCTTTGTACTCAGGGAGTAGTTGAGGAAATGGTACAAAAAAAGTAAGAAGGAATTCAATAAAAATAATTCAATAGATTAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441600 90 +  21915920 TACAACCTTCCTTTGTACTCAGGGAGTAGTCGAGGAAATGGTACAAAAAAAGTAAGAAGGAATTCAATAAAAAGAATTCAATAGACTAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943052 89 -  90373283 TACAACCTTCCTTTGTACTCAGGGAGTAGTCGAGGAAATGGTAC-AAAAAAGTAAGAAGGAATTCAATAAAAAGAATTCAACAGACTAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446641 90 +   7543664 TACAACCTTCCTTTGTACTCAGGGAGTAGTCGAGGAAATGGTACAAAAAAAGTAAGAAGGAATTCAATAAAAAGAACTCAATAGACTAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217770 90 -  13750039 TACAACCTTCCTTTGTACTCAGGGAGTAGTCGAAGAAATGGTACAAAAAAAGTAAGAAAGAATTCAATAAAAAGAATTCAATAGACTAAA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673060 90 +  13128814 TACAATCTCCCTTTGTACTTGTGGAGTAGTCGAGAAAGTAGTACAAAGAAAGTAAGAAGGAATTCAACAAAAATAATTCAATAGACTAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901386 90 -  14377064 TACAGCCTCCCTTTGTACTTGCGGATTAGTTGAGAAGGTAGTACAAAGAAAGTAAGAAGGAACTCAACAAACAGAATTCAATACACTAAA
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18020620 63 +  39895921 GACAGCCTCCCTGTATTCCTATGAAGTAGTGAGGAGAATGATACAAAG---------------------------GTTCAGTGAACTAAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330162 76 +   3081153 TACAGCCTTCCTACATACTTCTGGAGTAAAGGGAAGAATAATGCAAAAAAATTAAG-AGAATTTCAATGATAAAAGG-------------
i dasNov3.JH578070          I 1557 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I
e otoGar3.GL873528           24844150 65 -  38779656 I

a score=941363.000000
s hg38.chr21_GL383579v2_alt     80168 106 +    201197 TTTTTCGACAGGAGTGAAGACATAATTTGTGTTTAAAGGTATTCCAAAAATACTGTGATGAACAACCATTGACCACTTTAAGGGAGAAGCATTTTCTAACACAGTG--
s panTro5.chr21               8698854 106 +  33445071 TTTTTCGACAGGAGTGAAGACACAATTTGTGTTTAAAGGTATTCCAAAAATATTGTGATGAACAACCATTGACCACTTTAAGGGAGAAGCATTTTCTAACACAGTG--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238080 106 +  46275980 TTTTTCGACAGGAGTGAAGACACAATTTGTGTTTAAAGGTATTCCAAAAATATTGTGATGAACAACCATTGACCACTTTAAGGGAGAAGCATTTTCTAACACAGTG--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220628 106 -  13858734 TTTTTCGACAGGAGTGAAGACATAATTTGTGTTTAAAGGTATTCCAAAAATATTGTGATGAACAACCATTGACCACTTTAAGGGAGAAGCATTTTCTAACACAGTG--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249489 106 +  32716333 TTTTTCGACAAGAGTGAAGACATAATTTGTGCTTAAAGGGATTCCAAAAATATTGTGATGAACAACCATTGACCACTTCAAGGGAGAAGCATTTTCTATCACAGTG--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656054 105 - 185818997 TTTCTCGACAAGAGTGAAGACATAATTTGTGTTCAAAGG-ATTCCAAAAATATTGTGATAAACAACCATTGGCCACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293003 105 - 192294377 TTTCTCGACAAGAATGAAGACATAATTTGTGTTCAAAGG-ATTCCAAAAATATTGTGATAAACAACCATTGGCCACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916863 105 -  30496662 TTTCTCGACAAGAGTGAAGACATAATTTGTGTTCAAAGG-ATTCCAAAAATATTGTGATAAACAACCATTGGCCACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441690 105 +  21915920 TTTCTCAACAAGAGTGAAGACATAATTTGTGTTTAAAGG-ATTCCAAAAATATTGTGATAAACAACCATTGGCCACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943141 105 -  90373283 TTTCTCAACAAGAGTGAAGACATAATTTGTGTTTAAAGG-ATTCCAAAAATATTGTGATAAACAACCATTGGACACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446731 105 +   7543664 TTTCTCAACAAGAGTGAAGACATAATTTGTGTTTAAAGG-ATTCCAAAAATATTGTGATAAACAACCATTGGCCACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217860 105 -  13750039 TTTCTCGACAAGAGTGAAGACATAATTTGTGTTTAAAGG-ATTCCAAAAATATTGTGATAAATAACCATTGGCCACTTTAAGGGAGAAGCATTTTCTATTAGAGTG--
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673150 106 +  13128814 CTTTTTGACTAAAATGAAGACATAATTTGTGTTTAAAGATATTCGAAAAATATTTTGATGAACAAGCATTGACAACTTTCAGGGAGAAGCATTGTCTATCAGAGTG--
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901476 106 -  14377064 TTTTTTGACTAAAATGAAGACGTAATTTATGTTTAAAGGTATTCCAAAAATATTGTGATGAACAAGCATTGACCACTTTCAGGGAGAAGTGTTGTGTATCAGAGTG--
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844215 106 -  38779656 tttccaAATGAGAATGAAGAAATAATTTGTGTTTAAAGATGTTCTAAAAATATTTTGATGAACATATGTTGTTCATTTTAAGGAAGTCACAATCTCTGTCCAAGTA--
i otoGar3.GL873528          I 65 C 0
s canFam3.chr31              18020683 105 +  39895921 GTTCTAGATGAGAATAAAGACATAACTTGTACTTAAAGATACTCAAAGAGTATTTGGATAAACACACA-TGTACAATTTAAGGAAGAAACATTTTCTATGAAAGGG--
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2330238  91 +   3081153 ----------------AGGAAATAGTTTGTGCTTAAAGATGTTCTAAAAATATTTTGGTGAGCATGT-CTGACCGCTTTAAAGAAGAAGCATCTTCTATCAAAGAATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23669327 2409 +  47401472 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I

a score=99331.000000
s hg38.chr21_GL383579v2_alt     80274 7 +    201197 GTGACAG
s panTro5.chr21               8698960 7 +  33445071 GTGACAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238186 7 +  46275980 GTGACAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220734 7 -  13858734 GTGACAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249595 7 +  32716333 GTGACAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656159 7 - 185818997 GTGACAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293108 7 - 192294377 GTGACAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916968 7 -  30496662 GTGACAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441795 7 +  21915920 GTGACAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943246 7 -  90373283 GTGACAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446836 7 +   7543664 GTGACAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217965 7 -  13750039 GTGACAG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673256 7 +  13128814 GTGACAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901582 7 -  14377064 GTGACAG
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23671736 7 +  47401472 GTGACAG
i micMur3.chr31             I 2409 C 0
s otoGar3.GL873528           24844321 7 -  38779656 GTGACAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18020790 7 +  39895921 GTGACAg
i canFam3.chr31             I 2 I 207
s dasNov3.JH578070            2330329 7 +   3081153 GTGAAAG
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I

a score=36229.000000
s hg38.chr21_GL383579v2_alt     80281 4 +    201197 -CCTC
s panTro5.chr21               8698967 4 +  33445071 -CCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238193 4 +  46275980 -CCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220741 4 -  13858734 -CCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249602 4 +  32716333 -CCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656166 4 - 185818997 -CCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293115 4 - 192294377 -CCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916975 4 -  30496662 -CCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441802 4 +  21915920 -CCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943253 4 -  90373283 -CCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446843 4 +   7543664 -CCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217972 4 -  13750039 -CCTC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673263 4 +  13128814 -CCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901589 4 -  14377064 -CCTC
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23671743 4 +  47401472 -CCTC
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24844328 4 -  38779656 -TCCC
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2330336 4 +   3081153 ATTT-
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18020797 207 +  39895921 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I

a score=138141.000000
s hg38.chr21_GL383579v2_alt     80285 12 +    201197 TAACAGTGCTTA
s panTro5.chr21               8698971 12 +  33445071 TAACAGTGCTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238197 12 +  46275980 TAACAGTGCTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220745 12 -  13858734 TAACAGTGCTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249606 12 +  32716333 TAACAGTGCTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656170 12 - 185818997 TAACAGTGCTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293119 12 - 192294377 TAACAGTGCTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916979 12 -  30496662 TAACAGTGCTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441806 12 +  21915920 TAACAGTGCTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943257 12 -  90373283 TAACAGTGCTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446847 12 +   7543664 TAACAGTGCTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217976 12 -  13750039 TAACAGTGCTTA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8673267 12 +  13128814 TAACAGTGCTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901593 12 -  14377064 TAACAGGGCTTA
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23671747 12 +  47401472 TAGCACTGCTTA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24844332 12 -  38779656 CAGCAGCGCTGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021004 12 +  39895921 TGACAGTGGTGA
i canFam3.chr31             I 207 C 0
s dasNov3.JH578070            2330340 12 +   3081153 TATCAGTGGTTA
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I
e calJac3.chr21              26482255 101 +  50472720 I

a score=228526.000000
s hg38.chr21_GL383579v2_alt     80297 18 +    201197 CATAAATAGCATATGATA
s panTro5.chr21               8698983 18 +  33445071 CATAAATAGCATATGATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238209 18 +  46275980 CATAAATAGCATATGATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220757 18 -  13858734 CATAAATAGCATATGATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249618 18 +  32716333 CATAAATAGCATAGGATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656182 18 - 185818997 CATAAATAGCATACGATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293131 18 - 192294377 CATAAATAGCATACGATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4916991 18 -  30496662 CATAAATAGCATACGATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441818 18 +  21915920 CATAAATAGCATACGATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943269 18 -  90373283 CATAAATAGCATATGATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446859 18 +   7543664 CATAAATAGCATACGATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5217988 18 -  13750039 CATAAACAGCATATGATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482356 18 +  50472720 CATAAACAGTATATGATA
i calJac3.chr21             I 101 C 0
s saiBol1.JH378168            8673279 18 +  13128814 CGTAAACAGTATATGATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901605 18 -  14377064 CGTAAACAGCATATGATA
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23671759 18 +  47401472 CATAAACAGCATATGATA
i micMur3.chr31             C 0 I 166
s otoGar3.GL873528           24844344 18 -  38779656 CACAAACAGCATATGATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021016 18 +  39895921 CATCAACCGTATCTAATA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330352 18 +   3081153 AATAAACAGGATATAATA
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I

a score=439598.000000
s hg38.chr21_GL383579v2_alt     80315 42 +    201197 GACGGTAATTAAATGTAGAAAAGC--TTACACAAAACCCAGCTT
s panTro5.chr21               8699001 42 +  33445071 GATGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238227 42 +  46275980 GACGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220775 42 -  13858734 GACGGCAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249636 42 +  32716333 GACGGTAATTAAACATAGAAAAGC--TTATGCAAAACCCAGCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656200 42 - 185818997 GAAGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293149 42 - 192294377 GAAGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917009 42 -  30496662 GAGGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441836 42 +  21915920 GAAGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943287 42 -  90373283 GAAGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446877 42 +   7543664 GAAGGTAATTAAATATAGAAAAGC--TTACACAAAACCCAGCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218006 41 -  13750039 GAAGGTAATTAAATATAGAAAAGC---TGCACAAAACCCAGCTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482374 43 +  50472720 GAAGGTCATTACATGGAGAAAAGTT-TTACACAAGACCCAGCTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673297 43 +  13128814 GAAGGTAATTACATGGAGAAAAGTT-TTACACAAAACCCAGCTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901623 43 -  14377064 GAAGGTAATTACATGGAGAAAAGTT-TTACACAAAACCCAGCTT
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844362 43 -  38779656 TATGATAATTAAATATGAGAAAGCT-TTAGACAAAACCCAGTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021034 44 +  39895921 TATGTCAGTTAAATATAGAAAAGCTCTTACACAAAAGGCAGGTT
i canFam3.chr31             C 0 I 13
s dasNov3.JH578070            2330370 44 +   3081153 TAATGCAATTAAATATAGAAAACCTTTTACACAAAAGCCAGCTT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23671777 166 +  47401472 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I

a score=51717.000000
s hg38.chr21_GL383579v2_alt     80357 5 +    201197 CACtc
s panTro5.chr21               8699043 5 +  33445071 CAatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238269 5 +  46275980 CAatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220817 5 -  13858734 CACtc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249678 5 +  32716333 CACtc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656242 5 - 185818997 CACtc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293191 5 - 192294377 CACtc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917051 5 -  30496662 CACtc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441878 5 +  21915920 CACtc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943329 5 -  90373283 CACtc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446919 5 +   7543664 CACtc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218047 5 -  13750039 CACtc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482417 5 +  50472720 CACtc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673340 5 +  13128814 CATtc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901666 5 -  14377064 CACtc
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844405 5 -  38779656 CACTG
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2330414 5 +   3081153 CACTT
i dasNov3.JH578070          C 0 I 6
e micMur3.chr31              23671777 166 +  47401472 I
e canFam3.chr31              18021078 13 +  39895921 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I

a score=74660.000000
s hg38.chr21_GL383579v2_alt     80362 12 +    201197 aatgatttactg
s panTro5.chr21               8699048 12 +  33445071 aatgatttactg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238274 12 +  46275980 aatgatttactg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220822 12 -  13858734 aatgatttactg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249683 12 +  32716333 aatgatagactg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656247 12 - 185818997 aatgatagactg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293196 12 - 192294377 aatgatagactg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917056 12 -  30496662 aatgatagactg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441883 12 +  21915920 aatgatagactg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943334 12 -  90373283 aatgatagactg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446924 12 +   7543664 aatgatagactg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218052 12 -  13750039 aatgatagactg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482422 12 +  50472720 aatgataaactg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673345 11 +  13128814 aatgat-aactg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901671 12 -  14377064 attgataaattg
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844410  8 -  38779656 ATTTCCAG----
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23671777 166 +  47401472 I
e dasNov3.JH578070            2330419  6 +   3081153 I
e canFam3.chr31              18021078 13 +  39895921 I
e aotNan1.NW_018487195v1      9134014  6 -   9889416 I

a score=3018559.000000
s hg38.chr21_GL383579v2_alt     80374 416 +    201197 gataaagaaaacgtggcacatatacaccatggaatattatgtagccattaaaa-ggatgagttcatgtcctttgcagggacgtggatgaagctggaagccatcattctcagcaaactcagcaaacatcattctcagcaaacacaggcac----------------------------agaaaaccaaaaacttcatgttctcactcataagtgggagttgaacgatgagaacacatggacacagggaggggaacatcacacactggggcctgtccgg-ggggtgg-gggcaaggagagggagagcattaggacaaatacctaatgcatgtggggcttaaaacctagatgaggggttgatgggtgcagcaaaccaccatggcacatgtatacctatgtaacaaatctgcatgttctgcacatgtatcccagagcttaaagtaaaattt
s panTro5.chr21               8699060 416 +  33445071 gataaagaaaacgtggcacatatacaccatggaatattatgtagccattaaaa-ggatgagttcatgtcctttgcagggacgtggatgaagctggaagccatcattctcagcaaactcagcaaacatcattctcagcaaacacaggcac----------------------------agaaaaccaaaaacttcatgttatcactcataagtgggagttgaacaatgagaacacatggacacagggaggggaacatcacacactggggcctgtccgg-ggggtgg-gggcaaggagagggagagcattaggacaaatacctaatgcatgtggggcttaaaacctagatgaggggttgataggtgcagcaaaccaccatggcacatgtatacctatgtaacaaatctgcatgttctgcacatgtatcccagagcttaaagtaaaattt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238286 416 +  46275980 gatgaagaaaacgtggcacatatacaccatggaatattatgtagccattaaaa-ggatgagttcatgtcctttgcagggacgtggatgaagctggaagccatcattctcagcaaactcagcaaacatcattctcagcaaacacaggcac----------------------------agaaaaccaaaaacttcatgttatcactcataagtgggagttgaacaatgagaacacatggacacagggaggggaacatcacacactggggcctgtccgg-ggggtgg-gggcaaggagagggagagcattaggacaaatacctaatgcatgtggggcttaaaacctagatgaggggttgataggtgcagcaaaccaccatggcacatgtatacctatgtaacaaatctgcatgttctgcacatgtatcccagagcttaaagtaaaattt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8220834 416 -  13858734 gataaagaaaacgtggcacatatacaccatggaatattatgtagccattaaaa-ggatgacttcatgtcctttgcagggacgtgaatgaagctggaagccatcattctcagcaaactcagcaaacatcattctcagcaaacacaggcac----------------------------agaaaaccaaaaacttcatgttctcactcataagtgggagttgaacaatgagaacacatggacacagggaggggaacatcacacactggggcctgtccgg-ggggtgg-gggcaaggagagggagagcattaggacaaatacctaatgcatgtggggcttaaaacctagatgaggggttgataggtgcagcaaaccaccatggcacatgtatacctatgtaacaaatctgcatgttctgcacatgtatcccagagcttaaagtaaaattt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9249695 394 +  32716333 gataaagaaaatgtggcacatatacaccatggaatattatgtagccattaaaa-ggatgagttcacgtcctttgcagggacgtggatgaagctggaagccatcattctcagcaaact---------------------aacccaggaac----------------------------agaaaaccaaaaacttcatgttctcactcataagtgggagttgaacaatgagaacacatggacacagggaggggaacatcacacactggggcctgt-cga-ggggtgg-gggcaaggagagggagagcattacgacaaatacctaatgcaagcggggcttaaaacctagatgaggggttgataggtgcagcaaaccaccatggcacatgtatacctatgtaacaaatttgcacgttctgcacatgtatcccagagcttaaagtaaaattt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656259 393 - 185818997 gataaagaaaatgtggaacatatacaccctggaatactacgtagccattaaaa-gcatgagttcatgtcctttgcagggacatggatgaagctggaagccatcattctcagcaaact---------------------aatacaggaac----------------------------agaaaaccaaaaactccgtgttctcactcataagtgggagctgaacaatgagaacatgtggacacagggaagggaacatcacacactggggcctgt-tgg-ggcgtgg-gggcaaggagagggagagcattaggac-gatacctaatgcatgcggggcttaaaacctagatggcaggttgataggtgcagcaaatcaccatggcacatgtatacctatgtaccaaatatgcacattctgcatgtgtatcccagagcttaaagtaaaattt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293208 393 - 192294377 gataaagaaaatgtggaacatatacaccctggaatactacgtagccattaaaa-gcatgagttcatgtcctttgcagggacatggatgaagctggaagccatcattctcagcaaact---------------------aatacaggaac----------------------------agaaaaccaaaaactccgtgttctcactcataagtgggagttgaacaatgagaacatgtggacacagggaagggaacatcacacactggggcctgt-tgg-ggcgtgg-gggcaaggagagggagagcattaggac-gatacctaatgcatgcggggcttaaaacctagatggcaggttgataggtgcagcaaatcaccatggcacatgtatacctatgtaacaaatatgcacattctgcatgtgtatcccagagcttaaagtaaaattt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917068 392 -  30496662 gataaagaaaatgtggaacatacacaccctggaatactacgtagccattaaaa-gcatgagttcatgtactttggagggacatggatgaagctggaagccatcattctcagcaaact---------------------aatacaggaac----------------------------agaaaaccaaaaactccgtgttctcactcataagtgggagttgaacaatgagaacatgtggacac-gggaagggaacatcacacactggggcctgt-tgg-ggcatgg-gggcaaggagagggagagcattaggac-gatacctaatgcatgcggggcttaaaacctagatggcaggttgataggtgcagcaaatcaccatggcacatgtatacctatgtaacaaatatgcacattctgcatgtgtatcccagagcttaaagtaaaattt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13441895 392 +  21915920 gataaagaaaatgtggcacatatacaccatggaatactatgtagccattaaaa-gcatgagttcatgtcctttgcagggacatggatgaagctggaagccatcattctcagcaaact---------------------aacacaggaac----------------------------agaaaaccaaaaactccgtgttctcactcataagtgggagttgaacaatgagaacatatggacacagggaagggaacatcacacactggggcctgt-cgg-ggcgtgg-gggcaaggagagggagagcattaggac-aatacctaatgc-tgcggggcttaaaacctagatggcaggttgataggtgcagcaaatcaccgtggcacatgtatacctatgtaacaaatatgcacattctgcatgtgtatcccagagcttaaagtaaaattt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943346 394 -  90373283 gataaagaaaatgtggaacatatacactatggaatactatgtagccattaaaa-gcatgagttcatgtcctttgcagggacatggatgaagctggaagccatcattctcagcaaact---------------------aatacaggaac----------------------------agaaaaccaaaaactctgtgttctcactcataagtgggagttgaacaatgagaacatatggacacagggaggggaacatcacacactggggtctgt-ccg-ggggtggagggcaaggagagggagagcattaggac-aatacctaatgcatgcggggcttaaaacctagatgacaggttgataggtgcagcaaatcaccatggcacatatatacctatgtaacaaatatgcacattctgcacatgtatcccagggcttaaagtaaaattt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3446936 392 +   7543664 gttaaagaaaatgtggaacatatacaccatggaatactatgtagccattaaaa-gcatgagttcatgtcctttgcagggacatggatgaagctggaagccatcattctcagcaaact---------------------aatacaggaac----------------------------agaaaaccaaaaactccgtgttctcactcataagtgggagttgaacaatgagaacatatggacacagggaagggaacatcacacactggggcctgt-cag-ggcgtgg-gggcaaggagagggagagcattaggac-aatacctaatgc-tgcggggcttaaaacctagatggcaggttgataggtgcagcaaatcaccatggcacatgtatacctatgtaacaaatatgcacattctgcatgtgtatcccagaggttaaagtaaaattt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218064 385 -  13750039 gataaagaaaatgtggcacatatacaccatggaatactatgtagccattaaaa-gcacgagttcatgtcctttgcagggacatggatgaagctggaagccatcattctcagcaaact---------------------aatacaggaac----------------------------agaaaaccaaaaactccgtgtt--------taagtgggagttgaacaatgagaacttatggacacagggaggggaacatcacacactggggcctgt-cgg-ggagtgg-gggcaaggagagggagagcattaggac-aatacctaatgcccgcagggcttaaaacctagatgacaggttgataggtgcagcaaatcaccatggcacatgtatacctatgtaacaaatatgcacattctgcacatgtatcccagagcttaaagtaaaattt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482434 353 +  50472720 gatagagaaaatgtgacacatatacaccatggaacactaggaagccgtaaaaaagaatcagttcatgtcttttgcaggaatatggatgaagctggaagccatcattttcagcaaact---------------------aacacaggaat----------------------------agaaaactaaacaattcatgttctcacc--------------------------------------aggaggagaccatcacacactgggcc-----tgg-ggggtgg-gagcaaggggagggagaacattaggacaaatacctaatgcatgcagaccttaaaacctagatgatgggttgtcaggtgcagcaaaccaccgtggcacatgtgtaccagtgtaacaaacctgcatgctctgcacatgtatctcagagctcaaagtaaatttt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673356 374 +  13128814 aataaagaaaatatgacacatatacaccatggaaaaccaggcagccataaaaacgaatcagttcatgtcctttgcagggatatggataaagctggaagccatcattttcagcaaact---------------------aacacaggaatagaaaaaaaaaaagaaagaaagaaagaaagaaaaccaaacaattcatgttctcaac--------------------------------------aggaggggaacatcacacactgggcc-----tagtggggtgg-ggaaaatgggagggagaacattaggacaaatacctaatgcattcagggcttaaaacatagatgatg--------ggtgcagcaaaccaccgtggcccatgtataccaatgtatcaaacctgcatggtctgcacatgtatcccagagctcaaagtaaatttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13901683 353 -  14377064 gataaagacattgtgacacatatacaccatggaaaaccaggcagccataaaaaagaatcaattcatatcctttgcagggatgcggatgaagttggaagccatcattttcagcaaact---------------------aacacaggaat----------------------------aggaaaccaaacaattcatgttctcgcc--------------------------------------tggaggggaacatcacacactgggcc-----tgg-ggggtgg-gggcaaggggagggagaaaattaggacaaataccgaatgcatgcagggcttaaaacctagatgatgggttgttaggtgcagcaaaccaccgtggcacatgtataccaatgtaacaaacctgcatgttctgcacatgtatcccagagctcaaagtaaattaa
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23671777 166 +  47401472 I
e dasNov3.JH578070            2330419   6 +   3081153 I
e canFam3.chr31              18021078  13 +  39895921 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I
e otoGar3.GL873528           24844418   0 -  38779656 C

a score=32241.000000
s hg38.chr21_GL383579v2_alt     80790 9 +    201197 aaaaaaaaa
s panTro5.chr21               8699476 9 +  33445071 aaaaaaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238702 8 +  46275980 -aaaaaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221250 9 -  13858734 aaaaaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250089 9 +  32716333 aaaaaaaaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656652 5 - 185818997 ----aaaaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293601 5 - 192294377 ----aaaaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917460 5 -  30496662 ----aaaaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442287 5 +  21915920 ----aaaaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943740 5 -  90373283 ----taaaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447328 5 +   7543664 ----aaaaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218449 5 -  13750039 ----aaaaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482787 7 +  50472720 --aaaaaat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673730 7 +  13128814 --aaaaaaT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902036 7 -  14377064 --aaaaaaT
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18021091 9 +  39895921 AAAAAAAAA
i canFam3.chr31             I 13 C 0
e micMur3.chr31              23671777 166 +  47401472 I
e dasNov3.JH578070            2330419 6 +   3081153 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e otoGar3.GL873528           24844418 0 -  38779656 C

a score=36256.000000
s hg38.chr21_GL383579v2_alt     80799 3 +    201197 aga
s panTro5.chr21               8699485 3 +  33445071 aga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238710 3 +  46275980 aga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221259 3 -  13858734 aga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250098 3 +  32716333 aga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656657 3 - 185818997 aga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293606 3 - 192294377 aga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917465 3 -  30496662 aga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442292 3 +  21915920 aga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943745 3 -  90373283 aga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447333 3 +   7543664 aga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218454 3 -  13750039 aga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482794 3 +  50472720 aga
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673737 3 +  13128814 AGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902043 3 -  14377064 AGA
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18021100 3 +  39895921 AAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330425 3 +   3081153 AGA
i dasNov3.JH578070          I 6 C 0
e micMur3.chr31              23671777 166 +  47401472 I
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I
e otoGar3.GL873528           24844418 0 -  38779656 C

a score=1082666.000000
s hg38.chr21_GL383579v2_alt     80802 107 +    201197 aAG-AAAAATCTTC---TTTGTCGGGGATTATC-----ACTACATTTTTCACTGATTTGAG-----AGAAACATGCAGCTTTCTGTCTTTGA-------ATGACTAC-----------AACTGTGGGAAATCATATTTA
s panTro5.chr21               8699488 107 +  33445071 aAG-AAAAATCTTC---TTTGTCGGGGATTATC-----ACTACATTTTTCACTGATTTGAG-----AGAAACATGCAGCTTTCTGTCTTTGA-------ATGACTAC-----------AATTGTGGGAAATCATATTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238713 107 +  46275980 aaG-AAAAATCTTC---TTTGTCGGGGATTATC-----ACTACATTTTTCACTGATTTGAG-----AGAAACATGCAGCTTTCTGTCTTTGA-------ATGACTAC-----------AATTGTGGGAAATCATATTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221262 107 -  13858734 aAG-AAAAATCTTC---TTTGTCAGGGATTATC-----ACTACATTTTTCACTGATTTGAG-----AGAAACATGCAGCTTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATATTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250101 107 +  32716333 aAG-AAAAATCTTC---TTTGTCGGGGATTATC-----ACTACATTTTTCACTGATTTGAG-----ATAAACATGCAGCTTTCTGTCTTTGA-------ATGAATGC-----------AATTGTGGGAAATCATATTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656660 107 - 185818997 aag-aaAAATCTTC---TTTGCCGGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAACATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATGTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293609 107 - 192294377 aag-aaAAATCTTC---TTTGCCGGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAACATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATGTTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917468 107 -  30496662 aag-aaAAATCTTC---TTTGCCGGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAACATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATGTTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442295 107 +  21915920 aag-aaAAATCTTC---TTTGCCGGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAGCATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATGTTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943748 108 -  90373283 aagaaaAAATCTTC---TTTGCCGGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAACATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATGTTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447336 107 +   7543664 aag-aaAAATCTTC---TTTGCCAGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAACATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATTGTGGGAAATCATGTTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218457 107 -  13750039 aag-aaAAATCTTC---TTTGCTGGGGATTATC-----ACTATATTTTTCACTGATTTGAG-----AGAAACATGCAGATTTCTGTCTTTGA-------ATGAATAC-----------AATCATGGGAAATCATGTTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482797 107 +  50472720 aaT-AAAAATCTTC---TTTGTCGGGGATTATC-----ATTACATTTTTTACAGATTTGAG-----AGAAATGTGCAGCTTTCTGTCTTTGA-------ATAAATAC-----------ACTTGTTGGAAATCATATTTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673740 104 +  13128814 TAT-AAAAA---TC---TTTGTCGGGGATTATC-----ACTACATTTTTCACTAATTTGAG-----AGAAACTTGCAGCTTTCTGTGTTTGA-------ATGAATAC-----------ACTTGTTGGAAATCATATTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902046 107 -  14377064 AAT-AAAAATCTTC---TTTGTCGGGGATTATT-----ACTACATTTTTCACTGATTTGAG-----AGAAACGTGCAGCTTTCTATCTTTGA-------ATGAATAC-----------ACTTGTTGGAAATCATATTTA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844418 110 -  38779656 AAA-AGAAATCTTCTGTTTGGTCAGGGATTATC-----ACTGAACTTTACACTTATTTGAGGAAAAAAAAAAGTGAGGTTTTCTG----TGA-------ATGAATAC-----------AATTGTTGAAAATCTTATTT-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021103  98 +  39895921 AAG-ATAAATCTAT---TTTGGTAGAGATTATCTTATTACTGGAATTTACACTGATTTGAG-----AAAAATGTTCATT--------------------ATTAATAC-----------AATTGATGGAAAGCTTACTT-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330428 121 +   3081153 AAA-AAAAA---TC---TCTGGAAGAGATTATT-----ATTAGATTTTATGTTGATTTGAG-----AAAAACCCACACCTTTTTGTCTGTGACACACAGACAAATACAATCCCAACAAAATTGTTGAGAATCTTATTT-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23671777 166 +  47401472 I
e aotNan1.NW_018487195v1      9134014   6 -   9889416 I

a score=138056.000000
s hg38.chr21_GL383579v2_alt     80909 9 +    201197 TTTCCATCT
s panTro5.chr21               8699595 9 +  33445071 TTTCCATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238820 9 +  46275980 TTTCCATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221369 9 -  13858734 TTTCCATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250208 9 +  32716333 TTTCCATCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656767 9 - 185818997 TTTCCATCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293716 9 - 192294377 TTTCCATCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917575 9 -  30496662 TTTCCATCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442402 9 +  21915920 TTTCCATCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943856 9 -  90373283 TTTCCATCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447443 9 +   7543664 TTTCCATCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218564 9 -  13750039 TTTCCATCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482904 9 +  50472720 TTTCCATCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673844 9 +  13128814 TTTCCATCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902153 9 -  14377064 TTTCCATCT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23671943 9 +  47401472 TTTCCATCT
i micMur3.chr31             I 166 C 0
s otoGar3.GL873528           24844528 9 -  38779656 TTTCTATCT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021201 8 +  39895921 -TTCCATCT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330549 9 +   3081153 CTTCCATCT
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9134014 6 -   9889416 I

a score=1104916.000000
s hg38.chr21_GL383579v2_alt     80918 88 +    201197 TAAAAGTACATTCCTCGTGAACAGAGATATACCAAAGTCCTAAGAAGGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
s panTro5.chr21               8699604 88 +  33445071 TAAAAGTACATTCCTCGTGAACAGAGATATACCAAAGTCCTAAGAAGGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238829 88 +  46275980 TAAAAGTACATTCCTCGTGAACAGAGATATACCAAAGTCCTAAGAAGGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221378 88 -  13858734 TAAAAGTACATTCCTCGTGAACAGAGATACACCAAAGTCCTAAGAAGGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250217 88 +  32716333 TTAAAGTATAGTCCTCTTGAACAGAGATATACCAAAGTCCTAAGAAGGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656776 88 - 185818997 CAAAAGTATAGTCCTCATGAACAGAGATATACCAAAGTCCTAAGAATGCCTC-AGTGACCAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293725 88 - 192294377 CAAAAGTATAGTCCTCATGAACAGAGATATACCAAAGTCCTAAGAATGCCTC-AGTGACCAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917584 88 -  30496662 CAAAAGTATAGTCCTCATGAACAGAGATATACCAAAGTCCTAAGAATGCCTC-AGTGACAAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442411 88 +  21915920 CAAAAGTATAGTCCTCATGAAGAGAGATATACCAAAGTCCTAAGAATGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943865 88 -  90373283 CAAAAGTACAGTCCTCATGAACAGAGATACACCAAAGTCCTAAGAATGCCTC-AGTGACTAGTAGGTGCCATTTAAGTTTGCAGTAGGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447452 88 +   7543664 CAAAAGTATAGTCCTCATGAACAGAGATATACCAAAGTCCTAAGAATGCCTC-AGTGACCAGTAGGTGTCATTTAAGTTTGCGGTAGGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218573 88 -  13750039 CAAAAGTATAGTCCTCATCAACAGAGATATACCAAAGTCCTGAGAATGCCTC-AGTGACTAGTAGGTGTCATTTAAGTTTGCAGTAGGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482913 80 +  50472720 TAAAAGTATAGTCCTCATGAACAGAGAT-------AGTCCTAAAAAGGCCTC-AGTGCCTAGGAGGTGTCA-TTAAATTTGTAGTAGGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8673853 85 +  13128814 TAAAAGTATAGTCCTCGTGAACAGAGATGT---AAAGTCCTAAGAAGGCCTC-AGTGACTAGGAGGTGTCATTTAAGTTTGCAGTAGGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902162 85 -  14377064 TAAAAGTATAGTCCTCGTGAACAGAGGTAT---AAAGTCCTAAGAAGGCCTC-AGTGACTAGGAGGTATCATTTATGTTTGCAGTAAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134020 85 -   9889416 TAAAAGTACAGTCCTCATGAACAGAGATAT---AAAGTCCTGAGAAGGCCTC-AGTGACTAGGAGGTGTCATTTAAGTTTGCAGTAGGT
i aotNan1.NW_018487195v1    I 6 C 0
s micMur3.chr31              23671952 89 +  47401472 TAAAAATAGAGTCATTGTGAACAAAGATAAATCAAAGTCCTAAGAAGGCCTTAAGTGACTAGTAGGTGTTATTTAAGTTTGTAGTAGGT
i micMur3.chr31             C 0 I 748
s otoGar3.GL873528           24844537 89 -  38779656 CAAAAATAGAGTCATCATGAACAAAGATAAATAAAAAGTTGGAGAAGGCATTAAGGGACTAGTAGGTGTCACTTAAGTTTGCACTAGGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021209 88 +  39895921 TAAAAGCAGAGTCACCATGAACAGAGATCAACCAAAGTGCCAAGAAGACCTA-GAGGACTAGTCAATGTCATCTGAGTCTGTAGTCGAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330558 77 +   3081153 TAAAAGTAAAGCCATCAAAATCAAAGACCCA--AAAGT-----GAAGG-----GATGACTAGTAGGTATCATCTGAGTTTAAGGTACTT
i dasNov3.JH578070          C 0 C 0

a score=3343730.000000
s hg38.chr21_GL383579v2_alt     81006 326 +    201197 GCACATGGAAGGCAAATCAATGA---TTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAAATAAAATAGAAACTT------------ATAGACG--GTTCTCAAGACAGTGAGAGCAATGAAATAGTTTCTCTTTAAATCTCAAACAGTGTTTATTA--ACTATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGA---TCTTTTCACAAACTTGTTTTTTCTCTCTACGT---ACACAAGCTTTACTTGCT-AAGCAGGAAACTATGGAATTGTTTTTCCTTGTAAGTAAAAAA-GTTAAATAGT-TTTTTACCTC
s panTro5.chr21               8699692 328 +  33445071 GCACATGGAAGGCAAATCAATGA-TTTTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAAATAAAATAGAAACTT------------ATAGACG--GTTCTCAAGACAGTGAGAGCAATGAAATAGTTTCTCCTTAAATCTCAAACAGTGTTTATTA--ACTATAAAAATAGAACAGTCAAA----AGTCAGAAC-ACGGTAAGA---TCTTTTCACAAACTTGTTTTATCTCTCTACAT---ACACAAGCTTTACTTGCT-AAGCAGGAAACTATGGAATTGTTTTTCCTTGTAAGTAAAAAA-GTTAAATAGT-TTTTTACCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22238917 325 +  46275980 GCACATGGAAGGCAAATCAATGA----TT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAAATAAAATAGAAACTT------------ATAGACG--GTTCTCAAGACAGTGAGAGCAATGAAATAGTTTCTCCTTAAATCTCAAACAGTGTTTATTA--ACTATAAAAATAGAACAGTCAAA----AGTCAGAAC-ACGGTAAGA---TCTTTTCACAAACTTGTTTTATCTCTCTACAT---ACACAAGCTTTACTTGCT-AAGCAGGAAACTATGGAATTGTTTTTCCTTGTAAGTAAAAAA-GTTAAATAGT-TTTTTACCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221466 325 -  13858734 GCACATGGAAGGCAAATCAATGA---TTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAAATAAAATAGAAACTT------------ATAGACG--GTTCTCAAGAGAGTGAGAGTAATGAAATACTTTCTCCTTAAATCTCAAACAGTGTTTATTA--ACTATAAAAATAGAACAGTCAAA----AGTCAGAAC-ACTGTAAGA---TCTTTTCACAAACTTGTTTTTTCTCTCTACAT---ACACAAGCTTTACTTGCT-AAGCAGGAAACTATGGAATTGTTTTTCCTTGTAAGTAAAAAA--TTAAATAGT-TTTTTACCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250305 329 +  32716333 GCACATGGAAGGCAAATCAATGATTTATT------TTTTTTTCTGTAAGGTTTAGGCAGATAAAGAAGAACTTTTGCAAAATATCACTTGAAACTCAAGATAAAATAGAAACTT------------ATAGACA--GTTCTCAAGACAGTGAGAGCAATGAAATAGTTCCTCCTTAAATCTCAAACAGTGTTTATTA--ACTATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATCGTAAGA---TCTTTTCACAAACTTGTTTTTTCTCTCTACAT---ACACAAGCTTTGCTTGCT-AAGCAGGAAACTATGGAATTGTTTTCCCTTGTAACTAAAAAA-GTTAAACAGT-CTTTTACCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160656864 331 - 185818997 GCACAAGGAAGGTAAATCAATGA---TTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ATAGATG--GTTCTCAAGACATTGAGAGCAATGAAATAGTTTCTCCCTAAATCTCAAACAGTGTTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGATCTTCTTTTCACAAACTTGTTTTTTCTCTCTACATACCACACAAGCTTTACTTACT-AAGCCAGAAACTGTGGAATTGTTTTCCCTTTTAAGTAAAAAA-GTTAAATAGT--TTTTACCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167293813 330 - 192294377 GCACAAGGAAGGTAAATCAATGA---TTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ATAGATG--GTTCTCAAGACATTGAGAGCAATGAAATAGTTTCTCCCTAAATCTCAAACAGTGTTTATTA--AATATAAAAATAGAACAGTC-AA----AGTCAGAAC-ATTGTAAGATCTTCTTTTCACAAACTTGTTTTTTCTCTCTACATACCACACAAGCTTTACTTACT-AAGCCAGAAACTGTGGAATTGTTTTCCCTTTTAAGTAAAAAA-GTTAAATAGT--TTTTACCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4917672 332 -  30496662 GCACAAGGAAGGTAAATCAATGA--TTTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ATAGATG--GTTCTCAAGACATTGAGAGCAATGAAATAGTTTCTCCCTAAATCTCAAACAGTGTTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGATCTTCTTTTCACAAACTTGTTTTTTCTCTCTACATACCACACAAGCTTTACTTACT-AAGCCAGAAACTGTGGAATTGTTTTCCCTTTTAAGTAAAAAA-GTTAAATAGT--TTTTACCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442499 331 +  21915920 GCACAAGGAAGGTAAATCAATGA---TTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ACAGATG--GTTCTCAAGACACTGAGAGCAATGAAATAGTTTCTCCCTAAATCTCAAACAGTGTTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGATCTTCTTTTCACAAACTTGTTTTTTCTCTCTACATACCACACAAGCTTTACTAACT-AAGCCAGAAACTGTGGAATTGTTTTCCCTTTTAAGTAAAAAA-GTTAAATAGT--TTTTACCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19943953 329 -  90373283 GCACAAGGAAGGTAAATCAATGA-TTTTT------TTTTTTTCTGCAAGGTTGAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ATAGACA--GTTCTCAAGACATTGAGAGCAATGAAATAGTTTCTCCCTAAATCTCAAACGGTGTTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGA---TCTTTTCACAAATTTGTTTTTTCTCTCTACATACCACACAAGCTTTACTTACT-AAGTCAGAAACTGTGGAATTGTTTTCCCTTTTAAGTAAAAAA-GTTAAATAGT--TTTTACCC-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447540 331 +   7543664 GCACAAGGAAGGTAAATCAATGA---TTT------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ATAGACG--GTTCTCAAGACATTGAGAGCAATGAAAGAGTTTTTCCCTAAATCTCAAACAGTGTTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGATCTTCTTTTCACAAACTTGTTTTTCCTCTCTACATACCACACAAGCTTTACTTACT-AAGCCAGAAACTGTGGAATTGTTTTCCCTTTTAAGTAAAAAA-GTTAAATAGT--TTTTACCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218661 326 -  13750039 GCACAAGGAAGGTAAATCAATGA-----T------TTTTTTTCTGTAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGGAACTCAAGATAAAATAGAAACTT------------ATAGACG--GTTCTCAAGACATTGAGAGCAATGAAATCGTTTCTCCCAAAATCTCAAACAGTATTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCAGAAC-ATTGTAAGATCTTCTTTTCACAAACTTGTTTTTCCTCTCTACAT---ACACAAGCTTTACTTACT-AAGCCAGAAACTATGGAATTGTTTTCCCTTGTAAGTAAAAAA-GTTAAATAGT--TTTTACCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26482993 332 +  50472720 GCACATGGAAGGCAAGTCAATGA---TTTATGTA-TTTTTTTCCTTAAGGTTTAAGTGAATAAAGAAGAACTTTAGCAAAATGTCACCTGAAACTCAAGATAAAGTAGAAACTT------------ACAGACG--GTTCTC-AGACAATGAGAGCAATGAAATAGTTTCTCCTTAAATTTCAAATAGTGTTTATCA--AATATAAAGAGAGAACAGTCAAA----AGTCTGAAC-ATCATGAGATCTTCTTTTCAGAAACTTGTTTTTTCTCTTTACAT---ACACAAGCTTTACTTACT-ATGCAGGAAACTATGGAATTGTTTTCCCTTGTAAATAAAAAA-GTTAAGCATT--TTTTTTTTT
i calJac3.chr21             C 0 I 6
s saiBol1.JH378168            8673938 332 +  13128814 TCACATGGAAGGCAAATCAATGA---TTTATGTA-TTTTTTTCTATAAGGTTTAAGCAGTTAAAAAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------AGAGACG--TTTCTCAAGACAATGAGAGCAATGAAATAGTTTCTCCTTAAATCTCAAATAGTGTTTATTA--ATTATAAAGTTAGAATAGTCCAA----AGTCTGAAC-AT-GTGAGATCTTCTTTTCAGAAACTTTTTTTTTCTCTCTACGT---ACACAAGCTTTACTTACT-ATGCAGGAAACCATGGAATTGTTTTCCCTTGTAAGTAAAAAA-GTTAAACAGT--TTTTATCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902247 333 -  14377064 GCACATGGAAGGCAAATCAATGA---TTTATGTA-TTTTTTTCTATAAGGTTTAAGCAGATAAAGAAGAACTTTTGCAAAATGTCACTTGAAAGTCAAGATAACATAGAAACTT------------ACAGACG--CTTCTCAAGACAATGAGAGCAATGAAATTGTTTCTCCTTAAATCTCAAATAGTGTTTATTA--AATATAAAGATAGAAGAGTCAAA----AGTCTGAAC-ATTGTGAGATCTTCTTTTCAGAAACTTGTTTTTTCTCTCTACAT---ACACAAGCTTTACTTACT-ATGCAGGAAACTATGGAATTGTTTTCCCTTGTAAGTAAAAAA-GTTGAACAGT--TTTTACCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134105 334 -   9889416 GCACATGGAAGGCAAATCAATGA---TTTATGTATTTTTTTTCTATAAGGTTTAAACAGATAATGAAGAACTTTTGCAAAATGTCACTTGAAACTCAAGATAAAATAGAAACTT------------ACAGATG--CTTCTCAAGACAATGAGAGCAATGAAATAGTTTCTCCTTAAATCTCAAATAGTGTTTATTA--AATATAAAAATAGAACAGTCAAA----AGTCCGAAC-ATTGTGAGATCTTCTTTTCAGAAACTTGTTTTTTCTCTCTACAT---ACACAAGCTTTACTTACT-ACGCAGGAAACTATGGAATTGTTTTCCCTTGGAAGTAAAGAA-GTTAAACAGT--TTTTACCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24844626 230 -  38779656 ACACAAGGGAGGCAAATAAATAG---TTT------TTTTTTTCTGT----TTAAAACAAATAAATAAG--CTTT-----------AATTGAAATT-------------------------------------------------------------------------------------------ATGTTTAGTA--CATACAAAG-CAGAGCAGTCCAAAATCAATCAGTAA-ACTAT-ATATTGTCTTTTCATAATTTCTTTTTTCTGGTTTTGAT----------CTTTAAATACC-TAGCAGGAAAAGATGGGACTATTTTTACTCCTGAAGAAAAAATATTAGATAGT--TTTTAGCTC
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18021297 265 +  39895921 GCACAGGGAAGATAGATCAATGGCTTATT------TTTTTTTCTGTCAAGTTCAAGCAGATAAATAAAAACTTCTGCAAAATATCGCTTGAAAGCCAAGATGAAATA-AAACTT------------ACATATGTATTTCCCAGGACAGTAAGAGGAATGAAACAATTTCTA--------TTAAGTATCTTCTATCA---------------------CAAA---------------------------CTTTT-----ATTTGTTGTTGTTTCCTGCCT---GCACAA--------------AGCAGGAAAAGATGGGATTATTTTCTCTCTGAAGTGAAAAA-GTTAAGTATT--GTTTACATT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330635 296 +   3081153 ----------------------------------------------------------ACTTGATAAGAATTTTTGCAAAATACCACTTGAAAATCAAGATGAAATAAACACTTTCACATACACACATTTATG--TTTGCCAGGAC----AGAGGAATGAAATAATTTATCCTTATATCTCAAGTAATGTTTAATAATAATTTCTTAAAATAACAGTAAAA-ATCAGTCAGAACTACTATAAGG--ATATTGTCATTGACTGCTTTCACCCCCTTCTGT-CTACATATGCTTCATATACCAAAGTAATAAAAAATGAGATTATTTTCCCTATCAAGTGAAAAA-GTTAAATAATATTTTTATCTC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I

a score=4223.000000
s hg38.chr21_GL383579v2_alt     81332 5 +    201197 AGAAA
s calJac3.chr21              26483331 5 +  50472720 AGAAA
i calJac3.chr21             I 6 C 0
s cebCap1.NW_016107322v1     13902580 5 -  14377064 AGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24844857 5 -  38779656 AATAA
i otoGar3.GL873528          I 1 I 60
s canFam3.chr31              18021562 5 +  39895921 AGAAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2330931 5 +   3081153 AAAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e cerAty1.NW_012002954v1     13442830 0 +  21915920 C
e macNem1.NW_012015021v1      4918004 0 -  30496662 C
e macFas5.chr3              167294143 0 - 192294377 C
e rheMac8.chr3              160657195 0 - 185818997 C
e aotNan1.NW_018487195v1      9134439 0 -   9889416 C
e saiBol1.JH378168            8674270 0 +  13128814 C
e colAng1.NW_012120598v1      5218987 0 -  13750039 C
e manLeu1.NW_012103476v1      3447871 0 +   7543664 C
e gorGor5.CYUI01015003v1      8221791 0 -  13858734 C
e chlSab2.chr2               19944282 0 -  90373283 C
e nomLeu3.chr25               9250634 0 +  32716333 C
e panPan2.chr21              22239242 0 +  46275980 C
e panTro5.chr21               8700020 0 +  33445071 C

a score=2537.000000
s hg38.chr21_GL383579v2_alt     81337 7 +    201197 TAACTTG
s calJac3.chr21              26483336 7 +  50472720 TCACTTG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13902585 7 -  14377064 TAACTTG
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18021567 7 +  39895921 GAAGTTA
i canFam3.chr31             C 0 I 53
s dasNov3.JH578070            2330936 7 +   3081153 GAAATTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e cerAty1.NW_012002954v1     13442830 0 +  21915920 C
e macNem1.NW_012015021v1      4918004 0 -  30496662 C
e macFas5.chr3              167294143 0 - 192294377 C
e rheMac8.chr3              160657195 0 - 185818997 C
e aotNan1.NW_018487195v1      9134439 0 -   9889416 C
e saiBol1.JH378168            8674270 0 +  13128814 C
e otoGar3.GL873528           24844862 60 -  38779656 I
e colAng1.NW_012120598v1      5218987 0 -  13750039 C
e manLeu1.NW_012103476v1      3447871 0 +   7543664 C
e gorGor5.CYUI01015003v1      8221791 0 -  13858734 C
e chlSab2.chr2               19944282 0 -  90373283 C
e nomLeu3.chr25               9250634 0 +  32716333 C
e panPan2.chr21              22239242 0 +  46275980 C
e panTro5.chr21               8700020 0 +  33445071 C

a score=1146.000000
s hg38.chr21_GL383579v2_alt     81344 2 +    201197 Tg
s calJac3.chr21              26483343 2 +  50472720 TG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13902592 2 -  14377064 TG
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2330943 2 +   3081153 TG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e cerAty1.NW_012002954v1     13442830 0 +  21915920 C
e macNem1.NW_012015021v1      4918004 0 -  30496662 C
e macFas5.chr3              167294143 0 - 192294377 C
e rheMac8.chr3              160657195 0 - 185818997 C
e canFam3.chr31              18021574 53 +  39895921 I
e aotNan1.NW_018487195v1      9134439 0 -   9889416 C
e saiBol1.JH378168            8674270 0 +  13128814 C
e otoGar3.GL873528           24844862 60 -  38779656 I
e colAng1.NW_012120598v1      5218987 0 -  13750039 C
e manLeu1.NW_012103476v1      3447871 0 +   7543664 C
e gorGor5.CYUI01015003v1      8221791 0 -  13858734 C
e chlSab2.chr2               19944282 0 -  90373283 C
e nomLeu3.chr25               9250634 0 +  32716333 C
e panPan2.chr21              22239242 0 +  46275980 C
e panTro5.chr21               8700020 0 +  33445071 C

a score=214.000000
s hg38.chr21_GL383579v2_alt     81346 14 +    201197 gccgggcgcggtgg
s dasNov3.JH578070            2330945 14 +   3081153 GATGAGGATTGTGG
i dasNov3.JH578070          C 0 I 13052
e micMur3.chr31              23672041 748 +  47401472 I
e cerAty1.NW_012002954v1     13442830  0 +  21915920 C
e macNem1.NW_012015021v1      4918004  0 -  30496662 C
e macFas5.chr3              167294143  0 - 192294377 C
e rheMac8.chr3              160657195  0 - 185818997 C
e cebCap1.NW_016107322v1     13902594  0 -  14377064 C
e canFam3.chr31              18021574 53 +  39895921 I
e aotNan1.NW_018487195v1      9134439  0 -   9889416 C
e calJac3.chr21              26483345  0 +  50472720 C
e saiBol1.JH378168            8674270  0 +  13128814 C
e otoGar3.GL873528           24844862 60 -  38779656 I
e colAng1.NW_012120598v1      5218987  0 -  13750039 C
e manLeu1.NW_012103476v1      3447871  0 +   7543664 C
e gorGor5.CYUI01015003v1      8221791  0 -  13858734 C
e chlSab2.chr2               19944282  0 -  90373283 C
e nomLeu3.chr25               9250634  0 +  32716333 C
e panPan2.chr21              22239242  0 +  46275980 C
e panTro5.chr21               8700020  0 +  33445071 C

a score=0.000000
s hg38.chr21_GL383579v2_alt     81360 283 +    201197 ctcacgcctgtaatcccagcactttgggaggccgagacgggcggatcacgaggtcaggagatcgagaccatcctggctaacacggtgaaaccccgtctctactaaaaatacaaaaattagccgggcatggtggcgcgtgcctgtagtcccagctacacaggaggctgaggcaggagaatggcgtgaacccgggaggcggagcttgcagtgagtcgagatcaagccactgcactccagcctgggcgacagagcgaaactccgtctcaaaaaaaaaaaaaaaaaa
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I
e cerAty1.NW_012002954v1     13442830   0 +  21915920 C
e macNem1.NW_012015021v1      4918004   0 -  30496662 C
e macFas5.chr3              167294143   0 - 192294377 C
e rheMac8.chr3              160657195   0 - 185818997 C
e cebCap1.NW_016107322v1     13902594   0 -  14377064 C
e canFam3.chr31              18021574  53 +  39895921 I
e aotNan1.NW_018487195v1      9134439   0 -   9889416 C
e calJac3.chr21              26483345   0 +  50472720 C
e saiBol1.JH378168            8674270   0 +  13128814 C
e otoGar3.GL873528           24844862  60 -  38779656 I
e colAng1.NW_012120598v1      5218987   0 -  13750039 C
e manLeu1.NW_012103476v1      3447871   0 +   7543664 C
e gorGor5.CYUI01015003v1      8221791   0 -  13858734 C
e chlSab2.chr2               19944282   0 -  90373283 C
e nomLeu3.chr25               9250634   0 +  32716333 C
e panPan2.chr21              22239242   0 +  46275980 C
e panTro5.chr21               8700020   0 +  33445071 C

a score=33943.000000
s hg38.chr21_GL383579v2_alt     81643 4 +    201197 agaa
s panTro5.chr21               8700020 4 +  33445071 AGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239242 4 +  46275980 AGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221791 4 -  13858734 AGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250634 4 +  32716333 AGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657195 4 - 185818997 AGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294143 4 - 192294377 AGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918004 4 -  30496662 AGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442830 4 +  21915920 AGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944282 4 -  90373283 AGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447871 4 +   7543664 AGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218987 4 -  13750039 AGAA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8674270 4 +  13128814 AGAA
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9134439 4 -   9889416 AGAA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I
e cebCap1.NW_016107322v1     13902594 0 -  14377064 C
e canFam3.chr31              18021574 53 +  39895921 I
e calJac3.chr21              26483345 0 +  50472720 C
e otoGar3.GL873528           24844862 60 -  38779656 I

a score=82359.000000
s hg38.chr21_GL383579v2_alt     81647 10 +    201197 aTAACTTGTA
s panTro5.chr21               8700024 10 +  33445071 ATCACTTGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239246 10 +  46275980 ATCACTTGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221795 10 -  13858734 ATAACTTGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250638 10 +  32716333 ATAACTTGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657199 10 - 185818997 ATAACTTGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294147 10 - 192294377 ATAACTTGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918008 10 -  30496662 ATAACTTGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442834 10 +  21915920 ATAACTTGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944286 10 -  90373283 ATAACTTGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447875 10 +   7543664 ATAACTTGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5218991 10 -  13750039 ATAACTTGTA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8674274 10 +  13128814 ATAACCTGTA
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9134443 10 -   9889416 ATAACTTGTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24844922 10 -  38779656 GTGACTCCTA
i otoGar3.GL873528          I 60 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I
e cebCap1.NW_016107322v1     13902594  0 -  14377064 C
e canFam3.chr31              18021574 53 +  39895921 I
e calJac3.chr21              26483345  0 +  50472720 C

a score=194883.000000
s hg38.chr21_GL383579v2_alt     81657 19 +    201197 TTACTAGTGGCCTTCTACC
s panTro5.chr21               8700034 19 +  33445071 TTACTAGTGGCCTTCTACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239256 19 +  46275980 TTACTAGTGGCCTTCTACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221805 19 -  13858734 TTACTAGTGGCCTTCTACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250648 19 +  32716333 TTACCAGTGGTCTTCTACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657209 19 - 185818997 TTACTAGTGGTCTTCTACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294157 19 - 192294377 TTACTAGTGGTCTTCTACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918018 19 -  30496662 TTACTAGTGGTCTTCTACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442844 19 +  21915920 TTACTAGTGGTCTTCTACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944296 19 -  90373283 TTACTAGTGGTCTTCTACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447885 19 +   7543664 TTACTAGTGGTCTTCTACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219001 19 -  13750039 TTACTAGTAGTCTTCTACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483345 19 +  50472720 TTAGTAGTGGCCTTCTACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674284 19 +  13128814 TTAGTAGTGGCCTTCTACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902594 19 -  14377064 TTAGTAGTGGCCTTCTACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134453 19 -   9889416 TTAGTAGTGGCCTTCTACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24844932 15 -  38779656 TAAGTAG----CTTTTGCT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I
e canFam3.chr31              18021574 53 +  39895921 I

a score=2722687.000000
s hg38.chr21_GL383579v2_alt     81676 276 +    201197 ATGTATTACATCATACACTCATTTATTT--CTTTATATGGAATTTAGGATTTTAGCATCTAATATATACAATGTTCTTTTCAAGGCACCACAAGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGATATACTCtagt---aataatataataatagatataataagcagtgatatgatatatacataataaaagtaac--taaGattatattcgtattcatctttattttca---ttttAGTAACTACTTTGTATAGGTTGTATAAACATA
s panTro5.chr21               8700053 264 +  33445071 ATGTATTACATCATACACTCATTTATTT--CTTTATATGGAATTTAGGATtttagcatctaatatatacaatgttcttttcaaggcaccacaaggctatagtttttgatacgtctg-------------acaaatct-tatgccctcattgaagatatactctagt---AATAATATAATAA------------GCAGTGATATGATATATACATAATAAAAGTAAC--TATGAtcatattcgtattcatctttattttca---ttttAGTAACTACTTTGTATAGGTTATATAAACATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239275 264 +  46275980 ATGTATTACATCATACACTCATTTATTT--CTTTATATGGAATTTAGGATTTTAGCATCTAATATATACAATGTTCTTTTCAAGGCACCACAAGGCTATAGTTTTTGATACGTCTA-------------ACAAATCT-TATGCCCTCATTGAAGATATACTCtagt---aataatataataa------------gcagtgatatgatatatacataataaaagtaac--tatgatcatattcgtattcatctttattttca---ttttAGTAACTACTTTGTATAGGTTATATAAACATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8221824 276 -  13858734 ATGTATTACATCATACACTCATTTATTT--CTTTATAAGGAACTTAGGATTTTAGCATCTAATATATACAATGTTCTTTTCAAGGCACCACAAGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGATATACTCtagt---aataatataataatagatataataagcagtgatatgatatatacataaaaaaagtaac--tatgattatattcgtattcatctttattttca---ttttAGTAACTACTTTGTATAGGTTATATAAACATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250667 278 +  32716333 ACGTATTACATCATACACTCATTGCTTT--CTTTATATGGAATTTAGGATTTTAGCATCTAATATATACAATGTTCTCTTTAAGGCACCACAAGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGACATATTCtagt---aataatataataatagatataataagcagtgttacaatatatacataataaaagtaaCTTTATGATTATATTCCTATTCATCTTTATTTTCA---TTTTAGTAACTACTTTGTATAGGTTATATAAACATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657228 277 - 185818997 ATGTATTACATCATACACTCATTTATTT--C-TTAAATGGAATTTAGGATTTTAGCATCTACTGTATACAGTGTTCTTTTCTAGGCACCACAGGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TACGCCCTCATTGAAGATATACGCTAGT---AATAATATAATAATAGCTATAACAAGCAGTGTTATGATATATATGCAAAAAAGTTAACTTTATGATTATATTGCAATTCATCTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294176 277 - 192294377 ATGTATTACATCATATACTCATTTATTT--C-TTAAATGGAATTTAGGATTTTAGCATCCACTGTATACAGTGTTCTTTTCTAGGCACCACAGGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGATATACGCTAGT---AATAATATAATAATAGCTATAACAAGCAGTGTTATGATATATATGCAAAAAAGTTAACTTTATGATTATATTGCAATTCATCTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918037 278 -  30496662 ATGTATTACATCATACACTCATTTATTT--CTTTATATGGAATTTAGGATTTTAGCATCTACTGTATACAGTGTTCTTTTCTAGGCACCACAGGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGATATACGCTAGT---AATATTATAATAATAGCTATAACAAGCAGTGTTATGATATATATGCAAAAAAGTTAACTTTATGATTATATTGCAATTCATCTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13442863 278 +  21915920 GTGTATTATATCATACACTCATTTATTT--CTTTATATGGAATTTAGGATtttagcatctactgcatacaatgttcttttctaggcaccacagggctatagtttttgatacgtttg-------------acaaatct-tatgccctcattgaagatatactctagt---AATAATATAATAATAGCTATAACAAGCAGTGTTATGATATATATGCAAAAAAGTTAACTTTATGATTATATTGCAATTCATTTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944315 278 -  90373283 ATGTATTACATCATATACTCATTTATTT--CTTTATATGGAATTTAGGATTTTAGCATCTACTGTATACAATGTTCTTTTCTAGGCACCACAGGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGATATACTCTAGT---AATAATATAATAAAAGCTGTAACAAGCAGTGTTATGATATATATGCAAAAAAGTTAACTTTATGATTATATTGCAATTCATCTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3447904 276 +   7543664 ATGTATTACATCATACACTCATTTATTT--CTTTATATGGAATTTAGGATTTTAGCATCTACTGTAT--AGTGTTCTTTTCTAGGCACCACAGGGCTATAGTTTTTGATACGTTTG-------------ACAAATCT-TATGCCCTCATTGAAGATATACTCTAGT---AATAATATAATAATAGCTATAACAAGCAGTGTTATGATATATATGTAAAAAAGTTAACTTTATGATTATATTGCAATTCATCTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219020 277 -  13750039 ATGTATTACATCATACACTCATTTATTT--CTTTATGTGGAATTTAGGATtttagcatctactgtatacaatggtcttttctaggcaccacagggctatagtttttgatacgtttg-------------acaaatct-tatgccctcattgaaaatatactctagt---AATAATATAATAATAGCTATAACAAGCAGTGTTATGATATATATGCAAAAAAG-TAACTTTATGATTATATTGCAATTCATCTTTATTTTCA---TCTTAGTAACTACTTTGTATAGGTTATATAAACATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483364 278 +  50472720 ATGTATTACGTCTTACACTCATTTATGT--CTTTATATGGAAATTAGGATtttagcatctaaaatatgcaatgttcttttctaggcaccacagggctatagtttctgacatgtttg-------------acaaaggt-tttgccctcattgaaggtacactccagt---TATACTATAATAATAGATATAATAAGCAATGTTATGATACATACAAAATAAAGGTAGCTTTGTCATTATATTCCTATTCATTGTAATTTTCA---TTTTGGTAAGTACTTTGTATAGGTTATATAAACACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674303 278 +  13128814 ATGTATTACATCTCACATTCATTTATGT--CTTTATATGGAAATTAGGATTTTAGCATCTAAAATATACAATTTTCTTTTCTAGGCACCACAGGGCTAGAGTTTCTGACATGTCTG-------------ACAAAGCT-TTTGCCGTCATTGAAGGTATACTCTAAT---AATACTATAATTATAGATATAATAAGCAATGTTATGATACATACATATTAAAGGTAACTTTATAATTATATTCCTATTCATCTTAATTTTCA---TTTTGGTAACTACTTTGTATAGGTTATACAAACATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902613 278 -  14377064 ATGTATTACATCTTACACTCATTTATGT--CTTTATATGGAAATTAGGATtttagcatctaaaatatgcagtgttcttttctaggcaccacagggctagagtttctgacatgtttg-------------acaaaggt-tttgccctcattgaaggtatactctaat---gATACCATAATAATAGATATAAGCAGCAATGTTATTATACATACATAATAAAGGTAGCTTTATAATTATATTCCTATTCATCTTAATTTTCA---TTTTAGTAACTATTTTGTATAGGTTATATAAATACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134472 274 -   9889416 ATGTATTACGTTTTACACTCATTTATGT--CTTTATGTGGAAATAAGGATTTTAGCATCTAAAATATACAATGTTCTTGTCTAGGCACCACAGGGCTAGAGTTTCTGACATGTTTG-------------ACAAAGCT-TTTGCCCTCATTGAAGGTACACTCTAAT---AATACTATAATAATAGATATAATAAGCAATATTATGATACAT----AATAAAGGTAACCTTATAATTATATTCCTATTCATCTTAATTTTCA---TTTTGGTACCTACTTTGTATAGGTTATATAAACATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24844947 272 -  38779656 AT-CATTTTATCTTACACTTatttgttc--cttcatatggaaattaattttttggtattcagtatatactcgattctgttttaggcactgca-ggctatagtttgtgatatgtacc-------------acaagccc-c-tgctctcatgaaTGAAACACTGTAATTGCAATAATATAATAATAGATGTAA---GCAATGTTAGGATATATAG--AATAAAAGTAATATGACGGTGATATGC---TTCATTCCACTTTTTAAAGCTTTAACAA-TACCATTTCTAGGTTCTATAAACATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18021627 281 +  39895921 GTGTATTTCATCTTACATTCATTTTTTTTCCTTCATGGGGGAATTAATTTTTGTGTATCTAATATAAATCAGATGCTTTTCTAGACATTAAAATACCCCAGTtatatatatatatatatatatatatatatatatatatataCCCTCAATAAAGACACACT-TAGT---AATAATGTAATA---GATATAA---GTGATACCATGATACACAT--GATAAAAGTA----TATGATAATATTCATTATTCTTTTTTTTTCCA---TTTTAGTAACTACTTTTCCCAGATTTTGTTAATATA
i canFam3.chr31             I 53 I 397
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I

a score=43400.000000
s hg38.chr21_GL383579v2_alt     81952 4 +    201197 CATT
s panTro5.chr21               8700317 4 +  33445071 CATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239539 4 +  46275980 CATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222100 4 -  13858734 CATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250945 4 +  32716333 CATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657505 4 - 185818997 CATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294453 4 - 192294377 CATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918315 4 -  30496662 CATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443141 4 +  21915920 CATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944593 4 -  90373283 CATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448180 4 +   7543664 CATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219297 4 -  13750039 CATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483642 4 +  50472720 CATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674581 4 +  13128814 CATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902891 4 -  14377064 CATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134746 4 -   9889416 CATC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24845219 4 -  38779656 CTCT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I
e canFam3.chr31              18021908 397 +  39895921 I

a score=684065.000000
s hg38.chr21_GL383579v2_alt     81956 58 +    201197 ATG-TATTGT--TATGAATGAGTAACTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
s panTro5.chr21               8700321 58 +  33445071 ATG-TATTGT--TATGAATGAGTAACTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239543 58 +  46275980 ATG-TATTGT--TATGAATGAGTAACTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222104 58 -  13858734 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9250949 58 +  32716333 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i nomLeu3.chr25             C 0 M 100
s rheMac8.chr3              160657509 58 - 185818997 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294457 58 - 192294377 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918319 58 -  30496662 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443145 58 +  21915920 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944597 58 -  90373283 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448184 58 +   7543664 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219301 58 -  13750039 ATG-TATTGT--TATGAATGAGTAGCTTTGTAGCCTTGGTTAATGTTGAGTGATTTTAATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483646 58 +  50472720 ATA-TATTGC--TATGAACGAGTAGCTTTGTAGCTTTGGTTAATGTTGGATGATTTTAATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674585 56 +  13128814 ATG-TATTGT--TATGAATGAGTAGCTTTGTGGCTTTGGTTAA--TTGGGTGATTTTAACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902895 58 -  14377064 ATG-TATTGT--TATGAACGAGTAGCTTTGTAGCTTTGGTTAAAGTTGGGTGATTTTAATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134750 58 -   9889416 ATG-TATTGT--TATGAACGAGTAGCTTTGTAGCTTTGGTTAATGTTGGGTGATTTTAATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24845223 59 -  38779656 ATGTTATTGT--TAATAAAAAGTATCTATGTAGATTGTGCTAACGCTGAGTGATTATAATG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18022305 60 +  39895921 ATG-TGTTGTTGTATTAAACAGTAGTTCTGTATCCTCGGTTAGTGCTGAGGGATGATAGTA
i canFam3.chr31             I 397 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I

a score=539710.000000
s hg38.chr21_GL383579v2_alt     82014 68 +    201197 TGGTAAGTATGGGAGTATTTTG---AA-AAAAAGTAGTAATTGCTAGACAAA----TA---TTTT---AACTG-CTATTATAT
s panTro5.chr21               8700379 68 +  33445071 TGGTAAGTATGGGAGTATTTTG---GA-AAAAAGTAGTAATTGCTAGACAAA----TA---TTTT---AACTG-CTATTATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239601 68 +  46275980 TGGTAAGTATGGGAGTATTTTG---GA-AAAAAGTAGTAATTGCTAGACAAA----TA---TTTT---AACTG-CTATTATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222162 72 -  13858734 TGGTAAGTATGGGAGTATTTTG---AA-CAAAAGTAGTAATTGCTAGACAAATATTTA---TTTT---AACTG-CTATTATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160657567 71 - 185818997 TGGTAAGTATGGAAGTATTTTGAAAAA-AAAAAGTAGTAATTGCTTGAAAAA----TG---TTTT---AACTG-CTATTATAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294515 71 - 192294377 TGGTAAGTATGGAAGTATTTTGAAAAA-AAAAAGTAGTAATTGCTTGAAAAA----TA---TTTT---AACTG-CTATTATAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918377 71 -  30496662 TGGTAAGTATGGAAGTATTTTGAAAAA-AAAAAGTAGTAATTGCTTGAAAAA----TA---TTTT---AACTG-CTATTATAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443203 70 +  21915920 TGGTAAGTATGGGAGTATTTTG-AAAA-AAAAAGTAGTAATTGCTTGAAAAA----TA---TTTT---AACTG-CTATTATAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944655 69 -  90373283 TGGTAAGTATGGGAGTATTTTG--AAA-AAAAAGTAGTAATTGCTAGAAAAA----TA---TTTT---AACTG-CTATTATAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448242 70 +   7543664 TGGTAAGTATGGGAGTATTTTG-AAAA-AAAAAGTAGTAATTGCTTGAAAAA----TA---TTTT---AACTG-CTATTATAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219359 69 -  13750039 TGGTAAGTATGGGAGTATTTTG--AAA-AAAAGGTAGTAATTGCTTGAAAAA----TA---TTTT---AACTG-CTATTATAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483704 65 +  50472720 TGGTAAGTATGGGAGTATTCTT---TT----AAGTAGTAATTGCTAGGTGAA----TA---TGTT---AGCTG-CTACTATAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674641 68 +  13128814 TGGTAAGTATGGGAGTATTTTT---TT-TTAAAGTAGTAATTGCCAGGAAAA----TA---TGTT---AGCTG-CTACTATAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13902953 69 -  14377064 TGGTAAGTATGGGAGTATTTTT---TTTTTAAAGTAGTAATTGCTAGGCAAA----TA---TGTT---AGCTG-CTATTATAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134808 66 -   9889416 TGGTAAGTATGGAAGTATTTTT---TT---AAAGTAGTAATTGCTAGGCAAA----TA---CGTT---AGCTG-CTACTATAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24845282 70 -  38779656 TGGCAAATATATAAGTATTTTG----A-GAAAAACACAATTTGCTAGACAAA----TC---AATTGCAAAGTG-CTGTTATTT
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18022365 67 +  39895921 --GTAAATATGGGAGTATTGTG-AAAA-ATAAAACAAGTTTTGC-----AAA----TAGACTGTT---GACTGACAGATATAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I
e nomLeu3.chr25               9251007 100 +  32716333 M

a score=425866.000000
s hg38.chr21_GL383579v2_alt     82082 42 +    201197 -TTTAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
s panTro5.chr21               8700447 42 +  33445071 -TTTAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239669 42 +  46275980 -TTTAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222234 42 -  13858734 -TTTAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251107 39 +  32716333 -TTTAAAAACAC--AG-TGCACTGAAATACACTGTCAT--ATCAA
i nomLeu3.chr25             M 100 C 0
s rheMac8.chr3              160657638 42 - 185818997 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294586 42 - 192294377 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918448 42 -  30496662 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443273 42 +  21915920 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944724 42 -  90373283 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448312 42 +   7543664 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219428 42 -  13750039 -TATAAAAACAC--AGTTGCACTGAAATATACTGTCATTATTCAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483769 42 +  50472720 -TTTAAAAACAC--AGTAAAACCAAAATACACTGTCATTATTCAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674709 42 +  13128814 -TTTAAAAACAC--AGTAAAACCAAAATACACTGTCATTATTCAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903022 36 -  14377064 -TTTTAAAACAC--AGT------AAAATGCACTGTCATTATTCAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134874 42 -   9889416 -TTTAAAAACAC--AGTAAAACCAAAATACACTGTCATTATTCAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24845353 42 -  38779656 -TTAAAAAGCAC--GATTAAACTTACATATATTTTCCTTATTCAA
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18022432 45 +  39895921 TTTTCAAAACACTGAACTGAGTTGaaatatattttatttattcaa
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23672041 748 +  47401472 I
e dasNov3.JH578070            2330959 13052 +   3081153 I

a score=1311008.000000
s hg38.chr21_GL383579v2_alt     82124 102 +    201197 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTTAAAGATTTTTCTTCAAGTGCGTTGCCAC
s panTro5.chr21               8700489 102 +  33445071 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTTAAAGATTTTTCTTCAAGTGCGTTGCCAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239711 102 +  46275980 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTTAAAGATTTTTCTTCAAGTGCGTTGCCAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222276 102 -  13858734 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCACTTAATTGGGTACTTG-TTTTTTCCACTTTAAAGATTTTTCTTCAAGTGCGTTGCCAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251146 100 +  32716333 TTTAATTGAGTGCATTTTAGGA-CAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCAC-TTAAAGATTTTTCCTCAAGTGTGTTGCCAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657680 102 - 185818997 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGCGCATTGCCAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294628 102 - 192294377 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCATTGCCAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918490 102 -  30496662 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCATTGCCAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443315 102 +  21915920 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTACTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCCTCAAGTGCATTGCTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944766 102 -  90373283 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCACTGCCAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448354 102 +   7543664 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTACTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCATTGCTAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219470 102 -  13750039 TTTAATTGAGTGCATTTTAGGACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCATTGCCAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483811  93 +  50472720 TTAAATTGAAT---------GACCAGGTGCTTGCTTACCCTCCCAGTTAATTGGGTACTTG-ATTTTTCCACCTGAAAGATTTTTCTTCAAGTGTGTTGCCAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674751  93 +  13128814 TTGAATTGAAT---------GACCAGGTGCTTGCTTATCCTCCCATTTAATTGGGTATTTG-ATTTTTCCACCTGAAAGATTTTTCTTCAAGTGTGTTGCCAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903058  93 -  14377064 TTAAATTGAAT---------GACCAGGTGCTTGCTTAACCTCCCATTTAATTGGGTACTTG-ATTTTTCCATCTGAAAGATTTTTCTTCAAGTGTGTTGCCAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9134916  93 -   9889416 TTAAATTGAAT---------GACCAGGTGCTTGCTTACCCTCCCATTTAATTGGGTACTTG-ATTTTTCCACCTGAAAGATTTTTCTTCAAGTGTGCTGCCAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23672789 102 +  47401472 TTTAATCAAGTGCAATTTAGGACCAGGTGTTTGCTTAGCCTCCCATTTAATTTTCTACTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCTTTGCCAA
i micMur3.chr31             I 748 C 0
s otoGar3.GL873528           24845395 103 -  38779656 TTTAATCAAGTGCAGTTTAGGGCCAGGTGTTTGCGTAGCCTCCCATTTAATTGTCTGCTTGTTTTTTTCCACCTGAAAGATTTTTCTTCAAGTGCTTTGCCAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18022477 102 +  39895921 tttaatttaGTGCGTTTTAAGACCAGGTGTTTGCTTGGACTCCCATTTAACTGTGTATTTG-TTTTTTCCACCTGAAAGATTTTTCTTCAAATGCTTTGGCAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2330959 13052 +   3081153 I

a score=5005535.000000
s hg38.chr21_GL383579v2_alt     82226 356 +    201197 GTAACCAATGTATTTTCAACTTATagtcagttcttgattacctcctgggattactccattatggattacctgtaacaaactttgcttttcagaactt-attgacatcgctatcttctacacttctaattaagtcatttcctgacattcaggctgtttccccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGGCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAGTATTCAAAATTTTCAA-GGTATTAGGGAATATTTTCTTCTATCCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCATATTCAAATCTA
s panTro5.chr21               8700591 356 +  33445071 GTAACCAATGTATTTTCAACTTATagtcagttcttgattacctcctgggattactccattatggattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattaagtcatttcctgacattcaggctgtttccccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGGCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAGTATTCAAAATTTTCAA-TGTATTAGGGAATATTTTCTTCTATCCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCATATTCAAATCTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22239813 356 +  46275980 GTAACCAATGTATTTTCAACTTATagtcagttcttgattacctcctgggattactccattatggattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattaagtcatttcctgacattcaggctgtttccccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGGCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAGTATTCAAAATTTTCAA-TGTATTAGGGAATATTTTCTTCTATCCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCATATTCAAATCTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222378 356 -  13858734 GTAACCAATGTATTTTCAACTTATagtcagttcttgattacctcctgggattactccattatggattacctgtaacaaaccttgcttttcagtactt-attgacattgctatcttctacacttctaattaagtcatttcctgacattcaggctgtttctccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGCCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAGTATTCAAAATTTTCAA-TGTATTAGGGAATATTTTCTTATATCCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCATATTCAAATCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251246 356 +  32716333 GTACCCAATGTATTTTCAACTTATAGTCAGTTCTTGATTACCTCCTGGGATTACTCCATTATAGATTACCTGTAACAAACCTTGCTTTTCAGAACTT-ATTGACATTGCTATCTTCTACACTTCTAATTAAGTCATTTCCTGACATTCAGGCTGTTTCTCCAACTAGTAAAGTCTGTTTTAAAAGTCAAACTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGCCAACCATCATAGTTGAATAAGA---TTTTCAATTTAAGCATTCAAAATTTTCAA-TATATTAGGGAATATTTTCTTCTATCCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCTTATTCAAATCTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160657782 349 - 185818997 GTACCCAATGTATTTTCAACTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattgagtcatttcatgacattcaggctgtttctccaactagtaaagtctgctttaaaagtcaaacTAGTTTCTGACTGCAT-------TTATAAATTCCAACCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAATATTCAAAATTTTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAACGGCCATATTCAAATTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167294730 349 - 192294377 GTACCCAATGTATTTTCAACTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctagttgagtcatttcatgacattcaggctgtttctccaactagtaaagtctgctttaaaagtcaaacTAGTTTCTGACTGCAT-------TTATAAATTCCAACCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAATATTCAAAATTTTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAACGGCCATATTCAAATTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918592 356 -  30496662 GTACCCAATGTATTTTCAACTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattgagtcatttcatgacattcaggctgtttctccaactagtaaagtctgctttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTATAAATTCCAACCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAATATTCAAAATTTTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAACGGCCATATTCAAATTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443417 356 +  21915920 GTACCCAATGTATTTTCAACTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctaccttctacacttctaattaagtcatttcatgacattcaggctgtttctccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTGTAAATTTCAACCAACCATCATAGTTGAATAAGT---TTTTCAATTTAAATATTCAAAATTGTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAACGGCCGTATTCAAATCTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19944868 356 -  90373283 GTACCCAATGTATTTTAAACTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaacctcgcttttcagaactt-attgacattgctatcttctacacttctaattgagtcatttcatgacattcaggctgtttctccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTATAAATTTCAACCAACCATCACAGTTGAATAAGT---TTTTCAATTTAAATATTCAAAATTTTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAACGGCCATATTCAAATTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448456 356 +   7543664 GTACCCAATGTATTTTCAACTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattaagtcatttcctgacattcaggctgtttctccaactagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACCTTGTAAATTTCAACCAACCATCATAGTTGAGTAAGT---TTTTCAATTTAAATATTCAAAATTTTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAACGGCTATATTCAAATCTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219572 356 -  13750039 GTACCCAATGTATTTTCAGCTTAcagtcagttcttgattacctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattaagtcatttcatgacattcaggctgtttctccaactagtaaagtctgttttaaaagtcagacTAGTTTCTGACCACATATATACATTGTAAATTTCAACCAACCATCATGGTTGAATAAGT---TTTTCAATTTAAACATTCAAAATTTTCAA-TGTATTAGGGAATATTTCCTTCTATCCAGGAAAATAAATTCAATAAATCAAAATGTTTAATGGCCATATTCAAATCTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26483904 358 +  50472720 GTACCCAATGTATTTTCAACTTACATTCAGTTCTTGATTTTCTCCTGGGATTACTCCATTATAGATTACCTGTAGCAAACCTTGCTTTTCAGAACTT-ATTGACATTGCTATCTTCCACACTTCTAATTAAGTCATTTCCTGACATTCAGGCTGTTTCTCCAACTAGTAAATTCTGTTTTAAAAGTTAAACTAG-CTCTGACTGCATTTATACCTTATAAATTTCAGCCAACCATCATAGTTGAATATGTTGCTTTTCAATTTAAATATTCAAAATTTTCAA-TGCATTAGAGAATACTTTATTCTATCCAGGAAAGTAAATCCAATAAATGAAAATGTTTAATGGCCATATTCAAGTCTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8674844 356 +  13128814 GTACCCAATGTATTTTCAACTTACATTCAGTTCTTGATTATCTCCTGGGATTACTCCATTATAGATTACCTGTAACAAACCTTGCTTTTCAGAACTT-ATTGACATTGCTATCTTCTACACTTCTAATTAAGTCATTTCCTGACATTCAGGCTGTTTCTCCAACTAGTAAATTCTGTTTTAAAAGTCAAACTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGCCAACCATCATAGTTGAATATGT---TTTTCAATTTAAATATTCAAAATTTTCAA-TGCATTAGGGAATACTTTCTTCTATCCAGGAAATTACATCCAAAAAATCAAAATGTTTAATGGCCATATTCAAGTTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903151 356 -  14377064 GTACCCAATGTATTTTCAACTTATATtcagttcttgattatctcctgggattactccattatagattacctgtaacaaaccttgcttttcagaactt-attgacattgctatcttctacacttctaattaagtcattttctgacattcaggctgtttctccaactagtaaattctgttttaaaagtcaaacTAGTTTCTGATTGCATTTATACATTGTAAATTTCAGCCAACCATCATAGTTGAATACGT---TTTTCAATTTAGATATTCAAAATTTTTAA-TGCATTAGGGAATACCTTCTTCTATTCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCATATTCAAGTCTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9135009 356 -   9889416 GTACCCAATGTGTTTTCAACTTATATtcagttcttggttatctcctgggattactccattatacattacctgtaacaaaccttgcttttcagaactt-attgacactgctatcttctacacttctaattaagttatttcctgacattcaggctgtttctccaactagcaaattctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATACATTGTAAATTTCAGCCAACCATCATAGTTGAATACAT---TTTTCAGTTTAAATATTCAAAATTTTCAA-TGCATTAGAGAATTCTTTCTTCTATCCAGGAAAGTAAATCCAATAAATCAAAATGTTTAATGGCCATATTCAAGTCTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23672891 357 +  47401472 GTATCCAGTGTATTTTCAACTTATagtgagctcttgattatctcctgggattactacattatagattacctgtaacaaaccctgcttttcagaactt-attgacatcgctatcttctccactagcaattaagtcatttcctgacattcaggctgtttctccagctagtaaagtctgttttaaaagtcaaacTAGTTTCTGACTGCATTTATGCATTGTAAATAACAGCTCGCTATCATATTTGAATAAGT---TTTTCTATATAAATATTCAACGTTTTTAAATATATTCAGAAATATTTTGATATATCCAAGTAGGTAGAGCTCATAAATCAAAATGCTTAATTGCCATATTCAATTTTA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24845498 357 -  38779656 GTACCCAGTGTATTTTCAACTTATAGTGAAGTCTTGATTATCTCTCAGGATTCCTGCATTATAGATTACCTGTAACGAACCTTGCTTTGCTGAGATT-ACTGACATCGCTATCTTCTCCACTGGCAATTAAGTCATTTCCTGACATTCCGGCTGTTTCTCCAGCTAGTAAAATCTGTTTTAGAAGTCAAGCTAGTTCCTGACTGCATTTATACACTAGAAAGAACAGCCAGGCAACATATTTGAAAAAAT---ATTTCTACTTAAATACCCAAAGTTTTAAATTATATTTAGAAATATTTTGATTTATCCAAATAGGTAAGTCTCACAAATCAAAATGCTTAATTGCCGTATTCCAttttt
i otoGar3.GL873528          C 0 I 267
s canFam3.chr31              18022579 341 +  39895921 GC-CCTGATGTATTTTCTACTTATAGTCAGCTCTTGATTATCTCCCGGGATTACGACAATATAGATTACCTGTAACAAACCTTGCTTTTCAGAGCTT-ACTGACTTTGCTATCTTTTCCACTTGCAATTAAGTCATTTCCTGATATTCAGGCTTTATCTCCAGCTAGTAAAGTGTGTTTTTAAAGT-GACCTCTTTTCTGACTGCATTTAAACATTTTAAATAACAGCCAGTAATCATCTTTTAATAAGG---TTTTCAGTGTAAA-------------AAG-TATATCAGATGATATATTCTTCAATCCAAGAAGGTAGATAACACAAATCAAAATGTTTGGTTGCCATATGCAACTCTA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344011 323 +   3081153 GTAGCCAATTTCTTTTCAACTTATAGCTAGCTCTTGATTATCTACTGGGATTACTTCATTAAAGATGACTTGTAACAAACCTTACTTTTCAGAACTTAATCAGTACTGCTATCTTCACCACTTGCAATTAAGTCATGTCCTGACATTCAGGCTGTTACTCCAGCTAGTAATGTCATTTTTAAAATTCAAACAAGTTGCTGACTACCTTGATACATTTTGATTAATGGTCAATCATCATA--------------TTTT----------------AATGTTCAA-AAAAATATGGAATATTTTCATCTGTCCAAGAAGGAAAATTATAAAAATCAAAATGTTTACTTGCTATATTC-------
i dasNov3.JH578070          I 13052 C 0

a score=248212.000000
s hg38.chr21_GL383579v2_alt     82582 18 +    201197 AGTCATTACAAACCAGAA
s panTro5.chr21               8700947 18 +  33445071 AGTCATTACAATCCAGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240169 18 +  46275980 AGTCATTACAAACCAGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222734 18 -  13858734 AGTCATTACAAACCAGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251602 18 +  32716333 AGTCATTACAAACCAGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658131 18 - 185818997 AGTCATTACAAACCAGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295079 18 - 192294377 AGTCATTACAAACCAGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918948 18 -  30496662 AGTCATTACAAACCAGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443773 18 +  21915920 AGTCATAACAAACCAGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945224 18 -  90373283 AGTCATTACAAACCAGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448812 18 +   7543664 AATCATAACAAACCAGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219928 18 -  13750039 AGTCATTACAAACCAGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26484262 18 +  50472720 ATTCATTACAAATCAGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675200 18 +  13128814 ATTCATTACAAATCAGAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903507 18 -  14377064 ATTCATTACAAATCAGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9135365 18 -   9889416 ATTCATTACAAATCAGAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23673248 18 +  47401472 AATTATTACAAACCAGAA
i micMur3.chr31             C 0 I 112
s otoGar3.GL873528           24846122 18 -  38779656 AGTCATTACATTCCGGAA
i otoGar3.GL873528          I 267 C 0
s canFam3.chr31              18022920 18 +  39895921 AGTCAATATAAACCAGAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344334 15 +   3081153 ---TACCTCAAACCAGAA
i dasNov3.JH578070          C 0 C 0

a score=1060996.000000
s hg38.chr21_GL383579v2_alt     82600 107 +    201197 ATATGACAATTACTGAGAGACATAAGGTCATAAA----AGA---------T-------GTATAGTTTTTC-CTCATATTGTT-ATGCTTGAAGAATGTGAGTGGGTTGCAAGGGTACAGGGAT--CCATTC
s panTro5.chr21               8700965 107 +  33445071 ATACAACAATTACTGAGAGACATAAGGTCATAAA----AGA---------T-------GTATAGTTTTTC-CTCATGTTGTT-ATGCTTGAAGAATGTGAGTGGGGTGCAAGGGTACAGGGAT--CCATTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240187 107 +  46275980 ATACAACAATTACTGAGAGACATAAGGTCATAAA----AGA---------T-------GTATAGTTTTTC-CTCATGTTGTT-ATGCTTGAAGAATGTGAGTGGGGTGCAAGGGTACAGGGAT--CCATTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222752 107 -  13858734 ATATGACAATTACTGAGAGACATAAGGTCATAAA----AGA---------T-------GTATAGTTTTTC-CTCATGTTGTT-ATGCTTGAAGAATGTGAGTGCGTTGCAAGGGTACAGGGAT--CCATTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251620 107 +  32716333 ATATGACAATTACTGAGAGACATAAGGTCATAAA----AGT---------T-------GTATAGTTTTTC-CTCACGTTGTT-ATGCTTGAAGAATGTGAGTGGGTTGCAAGGGTACAGGGAT--CCATTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658149 107 - 185818997 GCATGGCAAAGACTGAGAGACATAAGATCATAAA----AGT---------T-------GTATAGCTTTTC-CTCATGTTGTT-ATGTTTGAAGAAAGTGAGTGGGCTGCAAGGGTACAGGGAT--CCATTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295097 107 - 192294377 GCATGGCAAAGACTGAGAGACATAAGATCATAAA----AGT---------T-------GTATAGCTTTTC-CTCATGTTGTT-ATGTTTGAAGAATGTGAGTGGATTGCAAGGGTACAGGGAT--CCATTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4918966 107 -  30496662 GCATGGCAAAGACTGAGAGACATAAGATCATAAA----AGT---------T-------GTGTAGCTTTTC-CTCATGTTGTT-ATGTCTGAAGAAAGTGAGTGGGCTGCAAGGGTACAGGGAT--CCATTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443791 107 +  21915920 GCATGGCAATGACTGAGAGACATAAGATCATAAA----AGT---------T-------GTATAGCTTTTC-CTCATGTTGTT-ATGTTTGAAGAATGTGAGTGGGCTGCAAGGGTACAGGGAT--CCATTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945242 107 -  90373283 GCATGGCAATGACTGAGAGACATATGATCATAAA----AGT---------T-------GTATAGCTTTTC-CTCATGTTGTT-ATGTTTGAAGAATGTGAGTGGGCTGCAAGGGTACAGGGAT--CCATTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448830 107 +   7543664 GCATGGCAATGACTGAGAGACATAAGATCATAAA----AGT---------T-------GTATAGCTTTTC-CTCATGTTGTT-ATGTTTGAAGAATGTGAGTGGATTGCAAGGGTACAGGGAT--CCATTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5219946 107 -  13750039 GCATGGCAATGACTGAGAGACATAAGATCATAAA----AGT---------T-------GTATAGCTTTTC-CTCATGTTGTT-ATGTTTGAAGAATGTGAGTGGGCTGCAAGGGTACAGGGAT--CCATTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26484280  98 +  50472720 ATATGGCAGTGACTGCAAGACATACGATCATAAA----AGT---------T-------GTCTGGTTTTTT-C---------T-ATATTTGAAGAATGTGAGTGGATTGCAAGGGTCCAGGTAT--CAATTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675218  98 +  13128814 ATATGGCAGTGACTGCGAGACATAAGATCATAAA----AGT---------T-------GTATAGTTTTTC-T---------T-ATATTTGAAGAATGTGAGTGGATTGCAAGGGTACAGGTAT--CGATTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903525  98 -  14377064 ATATGGCAGTGACTGTGAGACATAAGGTCATAAA----AGT---------T-------GTATAGTTTTTC-C---------T-GTATTTGAAGAATGTGAGTGGATTGCAAGGGTACAGGTAT--CGATTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9135383  98 -   9889416 ATATGGCAGTGACTGCGAGACATAAGATCATAAA----GGT---------T-------GTAGAGTTTTTC-C---------T-ATATTTGAAGAATGTGAGTGGATTGCAAGGGTACAGGTAT--CAATTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24846140 106 -  38779656 TGATGACAATCACGGAGAGATGGAGGATCGTAGAGGGTAGT---------T-------GTGTAATAGCTCTCTCATCTTGTTAATGTTTGAA----GTGAA-GGATTTCAGACGTACAGGGAT----ATTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18022938 114 +  39895921 TGATGGCGATTACTGAGAGATACAAGACCATAAA----AGA---------GAAGATAAGCAAAGTGCTTC-TTCATGTCGCT-ATGTGTGAAGAATGTGAGGAGATTGCAAGGGTGCAGGTAG--AGGCAC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344349 108 +   3081153 TGATGACAATCA----GAAACATGGGGCCATAGA----AGTGAAGAAATGT-------GAACAG-TCTGC-TTCTTGCTGTT-CTATGTGAAGGATGTAAGT--ATTATAAGAGTACAAGGATAGCCA---
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23673266 112 +  47401472 I

a score=410122.000000
s hg38.chr21_GL383579v2_alt     82707 27 +    201197 TTTGATCCTTCTCTCAAAGCATCTTTT
s panTro5.chr21               8701072 27 +  33445071 TTTGATCCTTCTCTCAAAGCATCTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240294 27 +  46275980 TTTGATCCTTCTCTCAAAGCATCTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222859 27 -  13858734 TTTGATTCTTCTCTCAAAGCATCTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251727 27 +  32716333 TTTGATTCTTCTCTCAAAGCATCTTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658256 27 - 185818997 TTTGATTCTTCTCTCAAAGTATCTTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295204 27 - 192294377 TTTGATTCTTCTCTCAAAGCATCTTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919073 27 -  30496662 TTTGATTCTTCTCTCAAAGCATCTTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443898 27 +  21915920 TTTGATTCTTCTCTCAAAGCATCTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945349 27 -  90373283 TTTGATTCTTCTCTCAAAGCATCTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448937 27 +   7543664 TTTGATTCTTCTCTCAAAGCATCTTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220053 27 -  13750039 TTTGATTCTTCTCTCAAAGCATCTTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26484378 27 +  50472720 TTTGATTCTTCTCTCAAAGCATCTTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675316 27 +  13128814 TTTGATTCTTCTCTCAAAGCATCTTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903623 27 -  14377064 TTTGATTCTTCTCTCAAAGCATCTTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9135481 27 -   9889416 TTTGCTTCTTCTCTCAAAGCATCTTTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23673378 27 +  47401472 TTTGATTCTTCTCTCAAAGCATCTTTT
i micMur3.chr31             I 112 I 376
s otoGar3.GL873528           24846246 27 -  38779656 GGAGATTCTGTTCTCAACCCATCTTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18023052 27 +  39895921 TTTGTTTTTTTGCTCAAAGCAACTTTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344457 27 +   3081153 TTTGAGTCCTCTCTCAAAACATCTTTC
i dasNov3.JH578070          C 0 C 0

a score=2334374.000000
s hg38.chr21_GL383579v2_alt     82734 225 +    201197 CCACCGATTAGCTGATTTTTA---------AAATTAA-ATTTTAAAGAA-------A-CGTTTCCTAAT------TATGCATAGCATTTTAATGCAAATTACTAATATC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATTTAGGCAAAATTCTAAGCCTTTGTATGTGGCACTCTTGAGAGGGAAGTAAGACACACATTCTCTCTCTCTGTTTTCATTAACTCATCTTCGAGGGTC----AAGTCCTGTGGG
s panTro5.chr21               8701099 225 +  33445071 CCACTGATTAGCTGATTTTTA---------AAATTAA-ATTTTAAAGAA-------A-CTTTTCCTAAT------TATGCATAGCATTTTAATGCAAATTACTAATATC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATTTAGGCAAAATTCTAAGCCTTTGTATGCGGCACTCTTGAGAGGGAAGTAAGACACACATTCTCTCTCTCTGTTTTCATTAACTCATCTTCGAGGGTC----AAGTCCTGTGGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240321 225 +  46275980 CCACTGATTAGCTGATTTTTA---------AAATTAA-ATTTTAAAGAA-------A-CTTTTCCTAAT------TATGCATAGCATTTTAATGCAAATTACTAATATC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATTTAGGCAAAATTCTAAGCCTTTGTATGCGGCACTCTTGAGAGGGAAGTAAGACACACATTCTCTCTCTCTGTTTTCATTAACTCATCTTCGAGGGTC----AAGTCCTGTGGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8222886 225 -  13858734 CCACCGATTAGCTGATTTTTA---------AAATTAA-ATTTTAAAGAA-------A-CTTTTCCTAAT------TATGCATAGCATTTTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATTTAAGCAAAATTCTAAGCCTTTGTATGTGGCACTCTTGAGAGGGAAGTAAGACACACATTCTCTCTCTCTGTTTTCATTAACTCATCTTCGAGGGTC----AAGTCCTGTGGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251754 245 +  32716333 CCACTGATTAGCTGATTTTTAAAATTTTTTAAATTAA-ATTTTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGCATAGCATTTTAATGCACATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAATATTTATTTAGGCAAAATTCTAAGCCTTTGTATGTGGCACTCTTGAGAGGGAAGTAAGACACACATTCTCTCTCTCTGTTTTCATTAACCCATCTTCGAGGGTC----AAGTTCTGTGGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658283 233 - 185818997 CCACCAATTAGCTGGTTTTTAA--------AAACTAA-ATATTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGTATAGCATTGTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATGTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAGAAGTAAGACACACATTCTCTCTCTTTGTTTTCATTAATCCATCTTCGAGGGTC----AAGTCCTGTGGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295231 233 - 192294377 CCACCAATTAGCTGGTTTTTAA--------AAATTAA-ATATTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGTATAGCATTTTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATGTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAGAAGTAAGACACACATTCTCTCTCTTTGTTTTCATTAATCCATCTTCGAGGGTC----AAGTCCTGTGGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919100 233 -  30496662 CCACCAATTAGCTGGTTTTAAA--------AAATTAA-ATATTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGTATAGCATTTTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATGTAGGCAATATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAGAAGTAAGACACACATTCTCTCTCTTTGTTTTCATTAATCCATCTTCGAGGGTC----AAGTCCTGTGGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13443925 228 +  21915920 CCACCAATTAGCTGCTTTTTAA--------AAATT-A-ATATTAAAGAAAAGAAACA-CTTTTCCTGAT------TATGTATAGCATTGTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATGTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAG----AAGACACACATTCTCTCTCTTTGTTTTCATTAATCCATCTTTGAGGGCC----AAGTCCTGCGGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945376 233 -  90373283 CCACCAATTAGCTGGTTTTTAA--------AAACTAA-ATATTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGTATAGCATTGTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCAGAGATCAGTAAA----TATGTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAGAAGTAAGACACACATTCTCTCTCTTTGTTTTCATTAATCCATCTTCGAGGGTC----AAGTCCTGTGCG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3448964 233 +   7543664 CCACCAATTAGCTGGTTTTTAA--------AAACTAA-ATATTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGTATAGCATTGTAATGCAAATTACTAATCTC-CGAAATGAGTATT---TCTGAGATCAGTAAA----TATGTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAGAAGTAAGACACACATTCTCTCTCTTTGTTTTCATTAATCCATCTTCGAGGGTC----AAGTCCTGTGGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220080 233 -  13750039 CCACCAATTGGCTGGTTTTTAA--------AAATTAA-ATATTAAAGAAAAGAAACA-CTTTTCCTAAT------TATGTATAGCATTTTAATGCAAATTACTAATCTC-AGAAATGAGTATT---TCTGAGATCAGTAAA----TATGTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGAGAGAGAAGTAAGACACATATTCTCTCTCTTTGTTTTCACTAATCCATCTTCGAGGGTC----AAGTCCTGTGGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26484405 233 +  50472720 CCACCAATAAACTGATTTTTA---------AAATTAATGTTTTAAAGAAAAGAAACA-TTTTTCCTAAT------TATATATAGCATTTTAATGCAAATAACTAATTCT-AAAAATGAGTAAT---TCTGAGATCAGTAAA----TATCTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGACAGGGAAGTAAGATACACATTCTCTCTCTCTGTTTTCATTAACCCACTTTCAAGGGTC----AAGTCCTGTGGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675343 230 +  13128814 CCACCaataaaatgattttta---------aaattaa-attttaaaGAAAAGAAACA-TTTTTCCTAAT------TATGTATAGCATTTTAATGCAAATAACTAATTCT-AAAAATGAGTAAT---TCTGAGATCAGTAAA----TATCTAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGACAGGGAAGTAAGATACACAT--TCTCTCTCTGTTTTCATTAACTCACTTTCAAGGGTC----AAGTCCTGTGGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903650 223 -  14377064 CCACCAATAAACTGATTTTTA---------AAATTAA-ATTTTAAAGAAAAGAAACA-TTTTTCCTAAT----------TATAGCATTTTAATGCAAATAACTAATTC--AAAAATGAGTAAT---TCTGAGATTAGTAAA--------TAGGCAAAATTCTAAGCCTTTGTATATGGCACTCTTGACAGGGAAGTAAGATACACGTTCTCTCTCTCTGTTTCCATTAACCCACTTTCAAGGGTC----AAGTCCTGTGGG
i cebCap1.NW_016107322v1    C 0 I 7
s aotNan1.NW_018487195v1      9135508 227 -   9889416 CCACCAATAAACTGATTTTTA---------AAATTAA-ATTTTAAAGAAAAGAAACA-TTTTTCCTAAT------TATGTATGGCATTTTAATGCAAA----TAATTCT-AAAAATGAGTAAT---TCTGAGATCAGTAAA----TATCTAGGCAAAG-TCTAAGCCTTTGTATATGGCACTCTTGACAGGGAAGTAAGATACACATTCTCTCTCTCTGTTTTCATTAACCCGCTTTCAAGGGTC----AAGTCCTGTGGG
i aotNan1.NW_018487195v1    C 0 I 7
s otoGar3.GL873528           24846273 239 -  38779656 TTTCTGACTGGCTAATTTTT----------CAATTAA-ATTAATAAGAAATGAAATATTTTTTCCTGAT------ACTGTACAGCATTTTAATACAAAGGACTGATATC----AATGCATATTCACTCTACTACCAATGAACATTTATCTGGGCAAAATGCTGAGCCTCTGCATCTGGCATTCTTAAAAGGGAAATAAGACACACATTATGTCTCTATTTCTTCACTAACCCACTTTT-AGAGTCTTCAGAGGCCTGCGGG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18023079 208 +  39895921 ----CCACTATCTAACTTTTAATAG-----ACACAAA-ACATT-------------C-CATTCCATAAT------TATATACAACATTTCAAAACAGGTGATTGATATCAAGAAATATTCATT---TCCAATATCAGGAAA----------------ATTCTAATTCCCT-TAACCAGCACTCTCAAAGAAGCAAATAAATGCATGATCCCT---TAGCTTTTTACTCACCTACTTTCCAAGGTCTCCATAGGCCTACAAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344484 234 +   3081153 ACACCAACTAAGTGACTTCTG---------AAATTAG-CTTTTAAAACTA------A-TGtattttaaaaatttatatgtatacaattttaata-aaGTGATTAATATGGAGAAATAATTGTC---TCCAAAATCAGGTAC----AATTCTGTTAAATTCTAGAGACCTGGTGC-TGGATCTCTTAAAATGTAAATAGGACATAGCTTAATTCCCTATCATTTACCTAACTAACTTTTCTGGGCT-TCATATACCTGTAAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23673405 376 +  47401472 I

a score=884736.000000
s hg38.chr21_GL383579v2_alt     82959 137 +    201197 GACAAATGAGTCCGTGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTGCTGAAATGCTATTTTTGTAATCCTACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGCCT
s panTro5.chr21               8701324 137 +  33445071 TACAAATGAGTCCGTGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTGCTGAAATGCTATTTTTGTAATCCTACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGCCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240546 137 +  46275980 TACAAATGAGTCCGTGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTGCTGAAATGCTATTTTTGTAATCCTACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGCCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223111 137 -  13858734 TACAAATGAGTCCGCGACATTTTTCATAGTCAC--TTGCTCACCTGATGTTAACCTCACCCTCTTCACTGCTGAAATGCTATTTTTGTAATCCTACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9251999 136 +  32716333 TACAAATGAGT-CATGACATTTTTCATAGTCAC--TTGCTCACCTGAGGCTAACCTCACCCTCTTCACTGCTGAAATGCTATTTTTGTAATCCCACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658516 137 - 185818997 TACAAATGAGTCCATGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCTTCTTCACTATTGAAATGCTATTTTTGTAATCCCACTCACAGCTCCATGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295464 137 - 192294377 TACAAATGAGTCCATGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTATTGAAATGCTATTTTTGTAATCCCACTCACAGCTCCATGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919333 137 -  30496662 TACAAATGAGTCCATGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTATTGAAATGCTATTTTTGTAATCCCACTCACAGCTCCATGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444153 137 +  21915920 TACAAATGAGTCCGTGACATTTTTCATAGTTAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTATTGAAATGTTATTTTTGTAATCTCACTCACAGTTCTGTGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945609 137 -  90373283 TACAAATGAGTCCGTGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTATTGAAATGCTATTTTTGTAATCTCACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449197 137 +   7543664 TACAAATGAGTCCATGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTATTGAAATGCTATTTTTGTAATCCCACTCACAGTTCCGTGCCTTATTTCTTAGCATCTCTGGAATTGTCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220313 137 -  13750039 TACAAATGAGTCTGTGACATTTTTCATAGTCAC--TTGCTCACCTGATGCTAACCTCACCCTCTTCACTATTGAAATGTTATTTTTGTAATCCCACTCACAGCTCCGTGCCTTATTTCTTAGCATCTCTGGCATTGTCT
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18023287 137 +  39895921 TACAGATAAATTCA--AAAACATTCATAGCCATGGCTGCTCGCGTAAGACTAACTCTCTCTTCATCATTGTGGGTGTGACATCCTTGTAACACCATTTAGAACCTCTTTTTTTATTGCCTGGAATCTCTGGAGGTGTCC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344718 137 +   3081153 TTCAAACCAGTCCAAGGCAGCACTCAAAGCAAT-GTTGTTGTTTTGATATTAACCCCATTTTATTTACTATGGAAATATCATCCTTGTAACTCCACAGACATACTCATATTGTACT-CATATCATCTGAAGAATTACCC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23673405 376 +  47401472 I
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C
e otoGar3.GL873528           24846512   0 -  38779656 C

a score=370655.000000
s hg38.chr21_GL383579v2_alt     83096 46 +    201197 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGACCT
s panTro5.chr21               8701461 46 +  33445071 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240683 46 +  46275980 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223248 46 -  13858734 ATATTTGCTCATGTACAAATCCTACGACATTGTTTCACACATGACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252135 46 +  32716333 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658653 46 - 185818997 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295601 46 - 192294377 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919470 46 -  30496662 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444290 46 +  21915920 ATATTTGCTCATGTACAAATCCTACAACATTGTTTCAAACAGGCCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945746 46 -  90373283 ATATCTGCTCATGTACAAATCCTACAACATTGTTTCACACAGGCCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449334 46 +   7543664 ATATTTGCTCATGTACAAATCCTACAATATTGTTTCACACAGGCCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220450 46 -  13750039 ATATTTGCTCATGTACAAATCCTACAACATTGTTTTACACAGGCCT
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23673781 46 +  47401472 ATATTTCCTCATGTACAAATCCTATAATATTCTTTCACACAGGCCT
i micMur3.chr31             I 376 I 30
s canFam3.chr31              18023424 46 +  39895921 ATATTTGCTCATGAACAAATTCCATAATGTTATTATGCAGAATCCT
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2344855 45 +   3081153 ACATTTGGAGAGGAACAAATCTTACAATATT-TTTCACACAGAACT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C

a score=275219.000000
s hg38.chr21_GL383579v2_alt     83142 41 +    201197 -TACAATTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
s panTro5.chr21               8701507 41 +  33445071 -TACAATTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240729 41 +  46275980 -TACAATTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223294 41 -  13858734 -TACAATTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252181 41 +  32716333 -TACAGCTGCATATTGATTATGCCTT--TTCATGTTTTTTCTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658699 41 - 185818997 -TACAACTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295647 41 - 192294377 -TACAACTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919516 41 -  30496662 -TACAACTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444336 41 +  21915920 -TACAATTGTATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945792 41 -  90373283 -TACAATTGCGTATTGATTATGCCTT--TTCATGTTGTTTCTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449380 41 +   7543664 -TACAATTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220496 41 -  13750039 -TACAACTGCATATTGATTATGCCTT--TTCATGTTGTTTCTAC
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18023471 43 +  39895921 -TAAAATTGCATAACGATTACTCCTTTATTTCTTTTCTCTCTGC
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2344900 41 +   3081153 ATA-AATTATATATTGACTGCACCTT--TACATTTTCTTCCATC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23673827 30 +  47401472 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C

a score=969415.000000
s hg38.chr21_GL383579v2_alt     83183 135 +    201197 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTATTCACTGAACTGGGGCTGCGTGGAAA
s panTro5.chr21               8701548 135 +  33445071 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACTCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTATTCACTGAACTGGGGCTGCGTGGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240770 135 +  46275980 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACTCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTATTCACTGAACTGGGGCTGCGTGGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223335 134 -  13858734 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTGTTCCT-TGAGTATTTACTGAACTGGGGCTGCGTGGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252222 135 +  32716333 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTTTCACTGAACTGGGGCTGCATGGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658740 135 - 185818997 ATGTGCCGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTATCACTGAACTGGGGCTGCATGGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295688 135 - 192294377 ATGTGCCGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCCAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTATCACTGAACTGGGGCTGCTTGGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919557 135 -  30496662 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTATCACTGAACTGGGGCTGCATGGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444377 163 +  21915920 TTGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTATTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAATAGTTCCTAAACTAAATAATTCCTAAATAATTAAATAATTCCTATGAGTTATCACTGAACTGGGGCTGCATGGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945833 135 -  90373283 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTATCACTGAACTGGGGCTGCATGGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449421 135 +   7543664 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTATCACTGAACTGGGGCTGCATGGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220537 135 -  13750039 ATGTGCTGCCTTTTGTTAGAGGAATCTTTCTCTTCCTAAAGTGTTCTACACCCAATACTCTCAAAGTAGTAAGACCCAAAA---AC--TAAACAGTGCT----------------------------GTATTCCTATGAGTTATCACTGAACTGGGGCTGTATGGAAA
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23673857 137 +  47401472 ATGTGCTGCCTTTTGTAACAGAACTTTTACTCTTCCTAAAGTGTTCAACACTCAGTAATCCCAAAGTGG-AACACCCAGAAGATAC--CAAACAGTGCT----------------------------GTATGCCCATGAGTTATCACTGAGCTGGGGCTGCATGGAAA
i micMur3.chr31             I 30 I 67
s canFam3.chr31              18023514 131 +  39895921 ATGT---GGCTTTTGACAGAAATATCTGACTTATCCTAAAATATTC-ACACTAGAAATTCATAAAGTAGTAAGACCAGAAG---ATAATAAATGGTGCT----------------------------CTATGCCAATGAGTTAACTTTGATTTGGGGACAAAGGCA--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2344941 124 +   3081153 ATGTGTT---TATTGTTGGAGAACTCTTACTCATCCCAGAGTATTCTAC-CCCAGTACTCCTAAAGAAGTAAGGTCCAAAA---GA--T-TTTGGTGTT----------------------------GTATGCAAGTAA------ACTGAACTGAAGAAATATGGAAA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C
e otoGar3.GL873528           24846512   0 -  38779656 C

a score=505093.000000
s hg38.chr21_GL383579v2_alt     83318 85 +    201197 TACATCCAC--ATA-TAAGTCAAGTGGCCCTCTCCTATAGATTCAATTAGACTCTTAAAGTCCATAAGAACAACATCTATAGTTTAAA
s panTro5.chr21               8701683 85 +  33445071 TACATCCAC--ATA-TAAGTCAAGTGGCCTTCTCCTATAGATTCAATTAGACTCTTAAAGTCCATAAGAACAACATCTATAGTTTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240905 85 +  46275980 TACATCCAC--ATA-TAAGTCAAGTGGCCTTCTCCTATAGATTCAATTAGACTCTTAAAGTCCATAAGAACAACATCTATAGTTTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223469 85 -  13858734 TACATCCAC--ATA-TAAGTCAAGTGGCCCTCTCCTATAGATTCAATTAGACTCTTAAAGTCCATAAGAACAACATCTATAGTTTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252357 85 +  32716333 TACATCCAC--ATA-TAAGTCAAGTGGCCCTCTCCTATAGATTCAATTAGACTCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658875 84 - 185818997 TA-ATCCAC--ATG-TAAGTCAAGTGGTCCTCTCCTATAGATTCAGTTAGACTCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295823 84 - 192294377 TA-ATCCAC--ATG-TAAGTCAAGTGGTCCTCTCCTATAGATTCAGTTAGACTCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919692 84 -  30496662 TA-ATCCAC--ATG-TAAGTCAAGTGGTCCTCTCCTATAGATTCAGTTAGACTCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444540 85 +  21915920 TACATCCAC--ATG-TAAGTCAAGTGGTCCTCTCCTACAGATTCAGTTAGACTCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19945968 84 -  90373283 TA-ATCCAC--ATG-TAAGTCAAGTGGTCCTCTCCTACAGATTCAGTTAGACTCTTGAAGTCCATAAGAACAACATCTATAGCTTAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449556 84 +   7543664 TA-ATCCAC--ATG-TAAGTCAAGTGGTCCTCTCCTATAGATTCAGTTAGACTCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220672 86 -  13750039 TACATCGAC--ATGTTAAGTCAAGTGGTCCTCTCCTATAGATTCAGTTAGACCCTTAAAGTCCATAAGAACAACATCTATAGCTTAAA
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18023645 77 +  39895921 GACAGCCAC--AGG-AAAG----GTAGCTATCTAGCATCAACTC----TGACTTCTAAGTGCCAGAAAAGCAATGTAAGTAGTTTAGG
i canFam3.chr31             C 0 I 4
s dasNov3.JH578070            2345065 85 +   3081153 --CATGTACTGACA-CAGGGAAGGTGGTCCTCTCCCATTCATTCAGATTAATTTCCTAGGGTCAAAGAAATGTCATTGACAGCTTAGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23673994 67 +  47401472 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C

a score=188822.000000
s hg38.chr21_GL383579v2_alt     83403 26 +    201197 TTTAGGTAAGTAGATGCCCTGCCAAA
s panTro5.chr21               8701768 26 +  33445071 TTTAGGTAGGTAGATGCCCTGCCAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22240990 26 +  46275980 TTTAGGTAGGTAGATGCCCTGCCAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223554 26 -  13858734 TTTAGGTAAGTAGATGCCCTGCCAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252442 26 +  32716333 TTTAGGTAAGTAGATGCCCTGCCAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658959 26 - 185818997 TTTAGGTAAGTAGATGCTCTGACAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295907 26 - 192294377 TTTAGGTAAGTAGATGCTCTGACAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919776 26 -  30496662 TTTAGGTAAGTAGATGCTCTGACAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444625 26 +  21915920 TGTAGGTAACTAGATGCCCTGCCAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946052 26 -  90373283 TGTAGGTAAGTAGATGCCCTGTCAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449640 26 +   7543664 TTTAGGTAAGCAGATGCTCTGACAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220758 26 -  13750039 TTTAGGTAAGTAGATGCCCTGACAAA
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23674061 26 +  47401472 TTTGGGTAAGTAGATGCCCTGCCAAA
i micMur3.chr31             I 67 I 185
s canFam3.chr31              18023726 26 +  39895921 GGTGGGTGGGTGGACACACTGCCCCT
i canFam3.chr31             I 4 C 0
s dasNov3.JH578070            2345150 26 +   3081153 TTTAGGTAGGTAAAAACTTTGCCAGA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C

a score=179398.000000
s hg38.chr21_GL383579v2_alt     83429 40 +    201197 AATACTTAGGtaattatatattatataag----------------------tcacataaatg
s panTro5.chr21               8701794 40 +  33445071 AATACTTAGGtaattagatattatataag----------------------tcacataaatg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241016 40 +  46275980 AATACTTAGGtaattagatattatataag----------------------tcacataaatg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223580 38 -  13858734 AATACTTAGGtaattatatattatat--g----------------------tcacataaatg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252468 40 +  32716333 AATACTTAGGTAATTATATATTATATAAG----------------------TCACAGAAATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160658985 58 - 185818997 AATACTTAGGTAATtatatattatataagttatatatc----agttatatatcacatatatg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167295933 58 - 192294377 AATACTTAGGTAATtatatattatataagttatatatc----agttatatatcacatatatg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919802 58 -  30496662 AATACTTAGGTAATtatatattatataagttatatatc----agttatatatcacatatatg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13444651 60 +  21915920 AATACTTAGGTAATTAtatattatat--gttttatatcacatagttatatatcacatatatg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946078 60 -  90373283 AATACCTAGGTAATTATGtattatat--gttttatatcacatagttatatatcacatatatg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3449666 58 +   7543664 AATACTTAGGTAATtatatattatataagttatatatc----agttatatatcacatatatg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5220784 62 -  13750039 AATACTTAGGTAattatatattatataagttacatatcacttagttatatatcacatatatg
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18023752 34 +  39895921 --------GATAATGATAATCTACAACAT--------------------TATTACTACTAAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2345176 38 +   3081153 TATAATT--GTATTTACATG-TATACATGT---------------------ATACATATATG
i dasNov3.JH578070          C 0 I 5993
e micMur3.chr31              23674087 185 +  47401472 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C

a score=674201.000000
s hg38.chr21_GL383579v2_alt     83469 126 +    201197 taacataatataaaatatgtattt----tattat-tctatatatgcataactac--agagacacaagcattcatacacatacacatgtatacacataaatac----atgagtataattacatatacatgtgtatgta
s panTro5.chr21               8701834 130 +  33445071 taacataatataaaatatgtattt----tattat-tctatatatGCATAACTACATAGAGACACAAGCATTcatacacatacacatgtatacacataaatac--atatGAGTATAATTACATATACATGTGTATGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241056 130 +  46275980 taacataatataaaatatgtattt----tattat-tctatatatGCATAACTACATAGAGACACAAGCATTcatacacatacacatgtacacacataaatac--ataTGAGTATAATTACATATACATGTGTATGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223618 125 -  13858734 taatataatataaaatatgtatttattatattat-tctagatatgcataactac--agagacacaagcattcatacacatacacatgtatacacataaatac--------atataattacata-acatgtgtatgta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252508 130 +  32716333 TAATATAAGATCAAATATGTATTTATTATATTAT-TCTATATATGCATAACTACATAGAGACACAAGCATTcatacacatacacatgtatacacataaatac--atatGAGTATAATTATATAAACACATGTA----
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659043 136 - 185818997 tgatataatataaaatatgtatttattatattat-tctatatgtgccccactacttagagacacaagcattcatacacatatacatgtatacacataaatacacatatgagtataatgacatatacacatgtatgtg
i rheMac8.chr3              C 0 I 23
s macFas5.chr3              167295991 136 - 192294377 tgatataatataaaatatgtatttattatattat-tctatatgtgcataactacatagagacacaagcattcatacacatatacatgtatacacataaatacacatatgagtataatgacatatacacatgtatgtg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4919860 136 -  30496662 tgatataatataaaatatgtatttattatattat-tctatatgtgcataactacatagagacacaagcattcatacacatatacatgtatacacataaatacacatatgagtataatgacatatacacatgtatgtg
i macNem1.NW_012015021v1    C 0 I 23
s cerAty1.NW_012002954v1     13444711 134 +  21915920 tgatataatataaaatatgtatttattatattat-tctatatgtgcataactacatagagacataagcattcatacacatatacatgtatacatataaat--acatatgagtataattacatatacacatgtatgtg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946138 137 -  90373283 tgatataatataaaatatgtacttattattctatatatatatgtgcataactacatagagacacaagcattcatacacatatacatgtatacacataaatacatatatgagtataattacatacacacacgtatgtg
i chlSab2.chr2              C 0 I 10
s manLeu1.NW_012103476v1      3449724 136 +   7543664 tgatataatataaaatatgtatttattatattat-tctatatgtgcataactacatagagacacaagcattcatacacatatacatgtatacacataaatacacatatgagtataatgacatatacacatgtatgtg
i manLeu1.NW_012103476v1    C 0 I 23
s colAng1.NW_012120598v1      5220846 136 -  13750039 tgatataatataaaatatgtatttattatattat-tctatatgtgcataactacatagagacacaagcattcatacacatatacatgtatacacataaatacatatatgagtataattacatacacacatgtatgtg
i colAng1.NW_012120598v1    C 0 I 41
s canFam3.chr31              18023786 109 +  39895921 TGTAAAAATAAGATATATGG---------------CATACATGTGCGTATATATGTACAAAA--------TCatatatatgcatatggacataagtatatgcatatat-----ttattacatgtatatatgtaaaca
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C
e otoGar3.GL873528           24846512   0 -  38779656 C

a score=20888.000000
s hg38.chr21_GL383579v2_alt     83595 22 +    201197 attatgta-----------tgtataatcacata
s panTro5.chr21               8701964 22 +  33445071 ATTATGTA-----------TGTATAATCACATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241186 22 +  46275980 ATTATGTA-----------TGTATCATCACATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223743 22 -  13858734 attatgta-----------tgtataatcacata
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167296127 14 - 192294377 -------------------tatgtaattataca
i macFas5.chr3              C 0 C 0
s cerAty1.NW_012002954v1     13444845 14 +  21915920 -------------------tatgtaattacaca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946285 33 -  90373283 attacatacaattgtattgtatgtaattacata
i chlSab2.chr2              I 10 C 0
s canFam3.chr31              18023895 20 +  39895921 --tatata-----------tGGATGTCCAAACA
i canFam3.chr31             C 0 I 1254
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e macNem1.NW_012015021v1      4919996 23 -  30496662 I
e rheMac8.chr3              160659179 23 - 185818997 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C
e colAng1.NW_012120598v1      5220982 41 -  13750039 I
e manLeu1.NW_012103476v1      3449860 23 +   7543664 I
e nomLeu3.chr25               9252638  0 +  32716333 C

a score=2385.000000
s hg38.chr21_GL383579v2_alt     83617 2 +    201197 ta
s panTro5.chr21               8701986 2 +  33445071 TA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241208 2 +  46275980 TA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223765 2 -  13858734 ta
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167296141 2 - 192294377 ca
i macFas5.chr3              C 0 I 7
s cerAty1.NW_012002954v1     13444859 2 +  21915920 ca
i cerAty1.NW_012002954v1    C 0 I 7
s chlSab2.chr2               19946318 2 -  90373283 ca
i chlSab2.chr2              C 0 I 28
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e macNem1.NW_012015021v1      4919996 23 -  30496662 I
e rheMac8.chr3              160659179 23 - 185818997 I
e cebCap1.NW_016107322v1     13903873 7 -  14377064 I
e canFam3.chr31              18023915 1254 +  39895921 I
e aotNan1.NW_018487195v1      9135735 7 -   9889416 I
e calJac3.chr21              26484638 0 +  50472720 C
e saiBol1.JH378168            8675573 0 +  13128814 C
e otoGar3.GL873528           24846512 0 -  38779656 C
e colAng1.NW_012120598v1      5220982 41 -  13750039 I
e manLeu1.NW_012103476v1      3449860 23 +   7543664 I
e nomLeu3.chr25               9252638 0 +  32716333 C

a score=35620.000000
s hg38.chr21_GL383579v2_alt     83619 18 +    201197 --catg---------------------------------tgtatgtaattatg
s panTro5.chr21               8701988 14 +  33445071 --CACG-------------------------------------TGTAATTATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241210 14 +  46275980 --CACG-------------------------------------TGTAATTATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223767 51 -  13858734 --cgtgtatgtaattatgtattataatcacatatacatgtgtatgtaattatg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252638 10 +  32716333 -------------------------------------------TGTAATTATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659202 16 - 185818997 catatg-------------------------------------tataattatg
i rheMac8.chr3              I 23 I 5
s macFas5.chr3              167296150 16 - 192294377 catatg-------------------------------------tataattatg
i macFas5.chr3              I 7 I 5
s macNem1.NW_012015021v1      4920019 16 -  30496662 catatg-------------------------------------tataattatg
i macNem1.NW_012015021v1    I 23 I 5
s cerAty1.NW_012002954v1     13444868 16 +  21915920 aatatg-------------------------------------tataattatg
i cerAty1.NW_012002954v1    I 7 I 5
s chlSab2.chr2               19946348 16 -  90373283 tatatg-------------------------------------tataattatg
i chlSab2.chr2              I 28 I 2
s manLeu1.NW_012103476v1      3449883 16 +   7543664 catatg-------------------------------------tataattatg
i manLeu1.NW_012103476v1    I 23 I 5
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e canFam3.chr31              18023915 1254 +  39895921 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C
e colAng1.NW_012120598v1      5220982 41 -  13750039 I

a score=1206538.000000
s hg38.chr21_GL383579v2_alt     83637 244 +    201197 tatgtataatcacataaacacaagtatgcatatgtaactatgtatattatatgcataattacatatgcccatgtatgtgtatgcaattatgtatattatgtatgtataattacatatacacat--------------------------atg----tgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgtgtatgAATGCTTGTGTCTCTATGTAGTTATGCACATATAGCATAATGTAATAAATACATATTTATATATATGC
s panTro5.chr21               8702002 236 +  33445071 TATGTATAATCATATATACACAAGTACGCATATGTAATTATGTATATTATATGCATAATTACATATGCCCATGTATGTGTATGCAATTATGTATATTATGTATGTATAATTACATAT--ACAT--------------------------ATG----TGTAATTATACACATATATG--------------------------TATTTATGTGTATAC------ATGTGTATGAACGCTTGTGTCTCTATGTAGTTATGCACATATAGCATAATGTAATAAATACATATTTATATATATGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241224 236 +  46275980 TATGTATAATCATATATACACAAGTACGCATATGTAATTATGTATATTATATGCATAATTACATATGCCCATGTATGTGTATGCAATTATGTATATTATGTATGTATAATTACATAT--ACAT--------------------------ATG----TGTAATTATACACATATATG--------------------------TATTTATGTGTATAC------ATGTGTATGAACGCTTGTGTCTCTATGTAGTTATGCACATATAGCATAATGTAATAAATACATATTTATATATATGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8223818 241 -  13858734 tat-tataatcacatatacacaagtatgcatatgtaattatgtatattatatgcataattacatatgcctatgtatgtgtatgcaattatgtatattatgtatgtacaattacatat--acac--------------------------atg----tgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtatctatgtagttatgcacatatagcataatgtaataaatacatatttatatatatgc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252648 268 +  32716333 TATGTATGATCACATATACACAAGtatgcatatgtaattatgtatattatgtgcataattacatatgcccatgtatgtgtatgcaattatgtatatTATGTATGTATAATTACATAT--ACAC--------------------------ATG----TGTAATTATACACATATATGTATTTATGTAATTATACACGTATATATATTTATGTGTATACATGTGTATGTGTATGAATGCTTGTGTCTCTATGTAGTTATACACATATAACATAATATAATAAATACATATTTATATATATGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659223 251 - 185818997 tatgtataatcacatatacacaagtatgtgtatg---------------------taattacatatatccatgtatgtgtatgtaattatgtatattatgtaggtataattacatat--acacatgtgtatgtaattatacatatacacatgtgtatgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtctctatgtagttatgcacatatagaatgatataataaatacatatttatatatatGC
i rheMac8.chr3              I 5 C 0
s macFas5.chr3              167296171 251 - 192294377 tatgtataatcacatatacacaagtatgcatatg---------------------taattacatatatccatgtatgtgtatgtaattatgtatattatgtaggtataattacatat--acacatgtgtatgtaattatacatatacacatgtgtatgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtctctatgtagttatgcacatatagaatgatataataaatacatatttatatatatGC
i macFas5.chr3              I 5 C 0
s macNem1.NW_012015021v1      4920040 272 -  30496662 tatgtataatcacatatacacaagtatgcatatgtaattacatatattatatgtataattacatatatccatgtatgtgtatgtaattatgtatattatgtaggtataattacatat--acacatgtgtatgtaattatacatatacacatgtgtatgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtctctatgtagttatgcacatatagaatgatataataaatacatatttatatatatGC
i macNem1.NW_012015021v1    I 5 C 0
s cerAty1.NW_012002954v1     13444889 250 +  21915920 tgtgtataatcatatatacacaagtatgcatatgtaattatgtacattatatgtataattacatatacccatgtatgtgtatgtaattatgtatattatgtaggtataattacatat--acccatgt----------------------atgtgtatgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgggtattaatgcttgtgtctctatgtagttatgcacatatagaatgatataataaatacatatttatatatatGC
i cerAty1.NW_012002954v1    I 5 C 0
s chlSab2.chr2               19946366 240 -  90373283 tgtgtataatcatacatacacaagtatgcatatgtaattatgtatat----tgtattattacatatacgcatgtatgtgtatgtaattatgtatattatgtaggtataattacatat--acac--------------------------atgtgtatgtaattatacac--atatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtccctatgtagttatgcacatatagagtgatataataaatacatatttatatatatGC
i chlSab2.chr2              I 2 C 0
s manLeu1.NW_012103476v1      3449904 246 +   7543664 taggtataatcacatatacacaagtatgcatatgtaattatgtatattatatgtataattacatatatccatgtatgtgtatgtaattatgtatattatgtaggtataattacatat--acac--------------------------atgtgtatgtaattatacacatatatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtctctatgtagctatgcacatatagaatgatataataaatacatatttatatatatGC
i manLeu1.NW_012103476v1    I 5 C 0
s colAng1.NW_012120598v1      5221023 243 -  13750039 tatgtataatcacatatacacaagtatgcatatgtaattatgtatattatatgcataattacatacacccctgtatgtgtatgtagttatgtatcttatgtaggtataattacacat--acac--------------------------atgtgtatgtaattatacacac-tatg--------------------------tatttatgtgtatacatgtgtatgtgtatgaatgcttgtgtctctatgtagctatgcacatatagaatgatataacaaatacatatt--tatatatGC
i colAng1.NW_012120598v1    I 41 C 0
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e canFam3.chr31              18023915 1254 +  39895921 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C
e otoGar3.GL873528           24846512   0 -  38779656 C

a score=184728.000000
s hg38.chr21_GL383579v2_alt     83881 31 +    201197 Acttccagttctagctgt-cttgcttaaaatt
s panTro5.chr21               8702238 31 +  33445071 Acttccagttctagctct-cttgcttaaaatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241460 31 +  46275980 Acttccagttctagctct-cttgcttaaaatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224059 30 -  13858734 a-ttccagttctagctct-cttgcttaaaatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252916 31 +  32716333 Acttccagttctagctct-cttgcttaaaatt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659474 31 - 185818997 Acttccagttctagctct-cttgcttaaaata
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296422 31 - 192294377 Acttccagttctagctct-cttgcttaaaata
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920312 31 -  30496662 Acttccagttctagctct-cttgcttaaaata
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445139 31 +  21915920 Acttccagttctagctct-cttgcttaaaata
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946606 31 -  90373283 Acttccagttctagctct-tttgcttaaaata
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450150 31 +   7543664 Acttccagttctagctct-cttgcttaaaata
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221266 31 -  13750039 Acttccagttctagctct-cttgcttaaaaca
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18025169 32 +  39895921 atctcaagccctggttctatttgcttaatgtt
i canFam3.chr31             I 1254 C 0
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C
e otoGar3.GL873528           24846512  0 -  38779656 C

a score=340746.000000
s hg38.chr21_GL383579v2_alt     83912 50 +    201197 tcttcctcca-tttacctctttcctctgtccctttactgtaagtaccaaga
s panTro5.chr21               8702269 50 +  33445071 tcttcctcca-tttacctctttcctctgtccctttactataagtaccaaga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241491 50 +  46275980 tcttcctcca-tttacctctttcctctgtccctttactataagtaccaaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224089 50 -  13858734 tcttcctcca-cttacctctttcctctgtcactttactgtaagtaccaaga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252947 50 +  32716333 tcttcctcca-tttacctctttcctctatcactttactgtaagtaccaaga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659505 50 - 185818997 tcttcctcca-tttacctctttcctctgtcactttactgtaagtgccaaga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296453 50 - 192294377 tcttcctcca-tttacctctttcctctgtcactttactgtaagtgccaaga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920343 50 -  30496662 tcttcctcca-tttacctctttcctctgtcactttactgtaagtgccaaga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445170 50 +  21915920 tcttcctcca-tttacctctttcctctgtcactttactgtaagtgccaaga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946637 50 -  90373283 tcttcctcca-tttacctctttcctctgtcactttactgtaagtgccaaga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450181 50 +   7543664 tcttcctcca-tttacctctttcctctgtcactttactgtaagtgccaaga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221297 50 -  13750039 tcttcctcca-tttacctctttcctctgtcactttactataagtgccaaga
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24846512 50 -  38779656 Tctttctcaa-tttaccttttttctctcttacttgactataagcagcagga
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18025201 46 +  39895921 tcttcccttagtttatcttttccccttctcattttagaataatgac-----
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23674087 185 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C

a score=1435861.000000
s hg38.chr21_GL383579v2_alt     83962 194 +    201197 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttctatataTCTGTAGGTTGCACATTTGATTCTATCACAAGCAGG--ATATCAAGAGTTATAAATAGTAGGCATTTGACTTAAGAGCTAGAAAGAAAGCTAGGAAAAGTTCAAGTT
s panTro5.chr21               8702319 194 +  33445071 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttctatataTCTGTAGGTTGCACATTTGATTCTATCACAAGCAGG--ATATCAAGAGTTATAAATAGTAAGCATTTGACTTAAGAGCTAGAAAGAAAGCTAGGAAAAGTTCAAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241541 194 +  46275980 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttctatataTCTGTAGGTTGCACATTTGATTCTATCACAAGCAGG--ATATCAAGAGTTATAAATAGTAAGCATTTGACTTAAGAGCTAGAAAGAAAGCTAGGAAAAGTTCAAGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224139 194 -  13858734 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccatataTCTGTAGGTTGCACGTTTGATTCTATCACAAGCAGG--ATATCAAGAGTTATAAATAGTAGGCATTTGACTTAAGAGCTAGAAAGAAAGCTAGGAAAAGTTCAAGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9252997 193 +  32716333 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttcAAGATATCTGTAGGTTGCACGTTTGATTCTATCACAAACAGG--ATATCAAGAGTTATAAATAGTAGGCATTTGAC-TAAGAGCTAGAAAGAAAGCTAGGAAAAGTTCAAGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659555 185 - 185818997 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccacataTCTGTAGGTTGCACATTTGATTCTATCACAAGTAGG--GTATCAAGAATT----ATAGTAGGCATTTGACTTAAGAACTAGAAAGAAATCTAG-----GTTCAAGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296503 189 - 192294377 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccacataTCTGTAGGTTGCACATTTGATTCTATCACAAGTAGG--GTATCAAGAATTAAAAATAGTAGGCATTTGACTTAAGAACTAGAAAGAAATCTAG-----GTTCAAGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920393 189 -  30496662 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccacataTCTGTAGGTTGCATATTTGATTCTATCACAAGTAGG--GTATCAAGAATTATAAATAGTAGGCATTTGACATAAGAACTAGAAAGAAATCTAG-----GTTCAAGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445220 189 +  21915920 aaaaaatgagctgcatcttcaacacttgattgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccacataTCTGTAGGTTGCACATTTGATTCTATCACAAGTAGG--ATATCAAGAATTATAAATAGTAGGCATTTGACTTAAGAACTAGAAAGACATCTAG-----GTTCAAGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946687 189 -  90373283 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttgttgcttacaaattctgctttccacaaaTCTGTAGGTTGCACATTGGATTCTATCACAAGTAGG--ATATCAAGAATTATAAATAGTAGGCATTTGACTTAAGAACTAGAAAGAAATCTGG-----GTTCAAGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450231 189 +   7543664 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccacataTCTGTAGGTTGCACATTTGATTCTATCACAAGTAGG--GTATCAAGAATTATAAATAGTAGGCATTTGACTTAAGAACTAGAAAGAAATCTAG-----GTTCAAGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221347 189 -  13750039 aaaaaatgagctgcatcttcaacacttgcttgaaaatttcctccagtaaatatccaaatttattgcttacaaattctgctttccacataTCTGTAGGTTGCACATTTGATTCTATCACAAGTAGG--ATATCAAGAATTATGAATAGTAGGCATTTGACTTAAGAACTAGAAAGAAATCTAG-----GTTCAAGTT
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23674272 194 +  47401472 aaaaaatgggctgcatcttcaacacttgttcaaaaatttcatctatgaaataaccaagttcactgcttacaaattctgccttccacatggtcgtaggttgcaattcagTTTCTACTACAAGTAGG--ATATTAAGCACTGCAAAGAGTAGACACTTGACTTGAAAGCTAGAAGGTAAGCTAGGAAAATTTCAAGTT
i micMur3.chr31             I 185 I 144
s otoGar3.GL873528           24846562 193 -  38779656 aaaaaatgggctgcatctttcctacttccttgaaaatttc-cccactaaatatccaagttcattgcttataaattcagccttccacacagcTGCCAATAGCAATTCTGTTTCTACCATAAGTAGG--ATCTTGAGAGTTGCAGAGAGTAGACATTTGACTTAAGAGCTAGAAGGTAACATTGGAAATTTTCAAGTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18025247 191 +  39895921 aaaacttg----gtattttcaacacttgcttggatttcttctctgctaaatatcgacgttcatcattgacatatactgctttccatgtatctacaggttgcaattcagccCCTACCACAAAAACTCCGTATTGGGAGTTTTATAGAGTACACATTTGACTTCAGAGCTAGAAAGGAGACTAGAAAAATTCCAAGT-
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C

a score=704122.000000
s hg38.chr21_GL383579v2_alt     84156 118 +    201197 TCTAAGTCATCACTTATGGATAAAGTACATAAAGCAATTCCATTGAAATGAATTCCCTCAA-----------------------------CACTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AATATA-TTTTTTGTAAC---ACTC---
s panTro5.chr21               8702513 118 +  33445071 TCTAAGTCATCACTTATGGATAAAGTACATAAAGCAATTCCATTGAAACGAATTCTCTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATTCTCACAA---AATATA-TTTTTTGTAAC---ACTC---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241735 118 +  46275980 TCTAAGTCATCACTTATGGATAAAGTACATAAAGCAATTCCATTGAAACGAATTCTCTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATTCTCACAA---AATATA-TTTTTTGTAAC---ACTC---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224333 118 -  13858734 TCTAAGTCATCACTTAGGGATAAAGTACATGAAGCAATTCCATTGAAATGAATTCCCTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AATATA-TTTTTTGTAAC---ACTC---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253190 118 +  32716333 TCTAAGTCTTCACTTATGGATCAAGTACATGAAGCAATTCCATTGAAATGAATTCCCTCAA-----------------------------CATTAAAATGAATGTTGC--AAAAAATTATCCTCGCAA---AATATA-TTTTTTGTGAC---ACTC---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659740 118 - 185818997 TCTAAGTCATTGCTTATGGATAAAGTACATGAAGCAATTCTATTGAAATGAATTCCTTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AATATA-TTTTTTGTGAC---TCTC---
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296692 117 - 192294377 TCTAAGTCATTGCTTATGGATAAAGTACATGAAGCAATTCTATTGAAATGAATTCC-TCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AATATA-TTTTTTGTGAC---TCTC---
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920582 118 -  30496662 TCTAAGTCATTGCTTATGGATAAAGTACATGAAGCAATTCTATTGAAATGAATTCCTTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AATATA-TTTTTTGTGAC---TCTC---
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445409 119 +  21915920 TCTAAGTCATTGCTTATGGATAAAGTACATGAAGCAATTCTATTGAAATGAATTCCTTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AACATATTTTTTTGTGAT---TCTC---
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946876 117 -  90373283 TCTAAGTCATTGCTTATGGATAAAGTACATGAAGCAATTCTATTGAAATGAATTCCTTCAA-----------------------------CATTAAAATAAATGTTGC--CAAAAATTATCCTCACAA---AATATA-TTTTTT-TGAC---TCTC---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450420 118 +   7543664 TCTAAGTCATTGCTTATGGATAGAGTACATGAAGCAATTCTATTGAAATGAATTCCTTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AGTATA-TTTTTTGTGAT---TCTC---
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221536 118 -  13750039 TCTAAGTCATTAGTTATGGATAAAGTACACGACGCAATTCTATTGAAATGAATTCCTTCAA-----------------------------CATTAAAATAAATGTTGC--AAAAAATTATCCTCACAA---AATATA-TTTTTTGTGAC---TCTC---
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24846755 120 -  38779656 TTTCAATGATCACTTAAAAATGAAATATATGACACGATTCTTTGGAAATGGATTCCCTCAA-----------------------------TATTGGTACAAATGTTTCCAAGAAGAAAATCTTTCCAA------ATA-TTTTTTCTCACTAGTTTC---
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18025438 152 +  39895921 TCACAGCCATCACATAGGAATGAAGTTTATGAAGC-ACTCTTTTGAAGTGAATCCCTTCAAATTGGAATATCtataaattactcagggctcactacaataagtgtagt--aagcatctgtcaccaaatattactaca-atcttattgac---tatattc
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23674466 144 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C

a score=230066.000000
s hg38.chr21_GL383579v2_alt     84274 31 +    201197 TCCATT--CTTCTAAATAATTATCTAAACTTTT
s panTro5.chr21               8702631 31 +  33445071 TCCATT--CTTCTAAATAATTATCTAAACTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241853 31 +  46275980 TCCATT--CTTCTAAATAATTATCTAAACTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224451 31 -  13858734 TTCATT--CTTCTAAATAATTATCTAAACTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253308 31 +  32716333 TCCATT--CTTCTAAATAATTATCTAAACTTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659858 31 - 185818997 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296809 31 - 192294377 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920700 31 -  30496662 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445528 31 +  21915920 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19946993 31 -  90373283 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450538 31 +   7543664 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221654 31 -  13750039 TCCATT--CTTCTAAAAAATTATCTAAACTTTT
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23674610 31 +  47401472 TCCATT--CTTCTAAATAATTACCTAAATTTTT
i micMur3.chr31             I 144 I 103
s otoGar3.GL873528           24846875 33 -  38779656 TCCATTTCTCTCTAAATAATTATCTAAATTTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18025590 16 +  39895921 cctatg--ctct---------------actctt
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C

a score=193636.000000
s hg38.chr21_GL383579v2_alt     84305 35 +    201197 CTTGTCT-----TTGCTTA--TTATTGAC---ATTTTCAACTCTT-
s panTro5.chr21               8702662 35 +  33445071 CTTGTCT-----TTGCTTA--TTATTGAC---ATTTTCAACTCTT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241884 35 +  46275980 CTTGTCT-----TTGCTTA--TTATTGAC---ATTTTCAACTCTT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224482 37 -  13858734 CTTGTCT-----TTGCTTA--TTATTGACTA-ATTTTCGACTTTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253339 38 +  32716333 CTTGTCT-----TTGCTTA--TTATTGACTACATTTTCGACTTTT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659889 38 - 185818997 CTTGTCT-----TTGCTTA--TTATTGACGACATTTTCAACATTT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296840 38 - 192294377 CTTGTCT-----TTGCTTA--TTATTGACGACATTTTCAACATTT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920731 38 -  30496662 CTTGTCT-----TTGCTTA--TTATTGACGACATTTTCAACATTT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445559 38 +  21915920 CTTGTCT-----TTGCTTA--TTATTGACTACATTTTCAACATTT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947024 35 -  90373283 CTTGTCT-----TTGCTTA--TTATT---GATATTTTCAACATTT-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450569 38 +   7543664 CTTGTCT-----TTGCTTA--TTATTGACGACATTTTCAACATTT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221685 38 -  13750039 CTTGTCT-----TTGCTTG--TTATTGACTACATTTTCAACATTT-
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24846908 38 -  38779656 CATGCCT-----TTACTTA--TTCTTGGTAATTTTTTGAGCTTTT-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18025606 46 +  39895921 catgtctgtgacttacttattttataaatggaagtttgtacctctt
i canFam3.chr31             C 0 I 718
e micMur3.chr31              23674641 103 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C

a score=371955.000000
s hg38.chr21_GL383579v2_alt     84340 65 +    201197 TGTTAGACTGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATCA---
s panTro5.chr21               8702697 65 +  33445071 TGTTAGACTGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATCA---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241919 65 +  46275980 TGTTAGACTGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATCA---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224519 61 -  13858734 TGTTAGACT-TAAATATTTAAA---ATATTTACACTTTTTCTAGGAATG-CTGTATATATGCATCA---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253377 65 +  32716333 TGTTAGACTGTAAATATTTAAATATTTATTTACAGTTTTTCTAGGAATG-CTGTAAATATGCATCA---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659927 65 - 185818997 TGTTAGACGGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATGA---
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296878 65 - 192294377 TGTTAGACGGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATGA---
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920769 65 -  30496662 TGTTAGACGGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATGA---
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445597 65 +  21915920 TGTTAGATGGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATGA---
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947059 65 -  90373283 TGTTAGACGGTAAATATTTAAATATTTATTTACATTTTTTCTAGGAATA-CTGTAAATATGCATGA---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450607 65 +   7543664 TGTTAGATGGTAAATATTTAAATATTTATTTACACTTTTTCTAGGAATG-CTGTAAATATGCATGA---
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221723 65 -  13750039 TGTTAGACGGTAAATATTTAAATATTTATTTACACCTTTTCTAGGGATG-CTATAAATATGCATGA---
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24846946 68 -  38779656 TAACAGAT-GTAAGCATTCAAATATTTATTTACTGTTTTTCTAGTGATATCTCTTAATCTGTGTGGCAG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674641 103 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C

a score=315304.000000
s hg38.chr21_GL383579v2_alt     84405  47 +    201197 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
s panTro5.chr21               8702762  47 +  33445071 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22241984  47 +  46275980 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224580  47 -  13858734 TGTCAATCAGTAGATGAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253442  47 +  32716333 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160659992  47 - 185818997 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAACGTGATCTGTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296943  47 - 192294377 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAACGTGATCTGTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920834  47 -  30496662 TGTCAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAGGAAAAGAACGTGATCTGTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445662  47 +  21915920 TGTTAATCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947124  42 -  90373283 TGTCAGTCAGTAGATAAACAAAATA---------------------------------------------------------------------------------------G-----AAGAATGTGATCTGTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450672  47 +   7543664 TGTCAATCAGCAGATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAACGTGATCTGTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221788  47 -  13750039 TGTCAATCAGTACATAAACAAAATA---------------------------------------------------------------------------------------GAAGAAAAGAATGTGATCTGTC
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23674744  47 +  47401472 TGTCAATCAGTAGATAAACAAATTA---------------------------------------------------------------------------------------GAAGAAAATAATGTGATTTGTC
i micMur3.chr31             I 103 I 377
s otoGar3.GL873528           24847014 134 -  38779656 TGTCAATCAACACATAAACAAAATAAGAAAATAgggcagcacctgtggctcaaaagagtagggccccatatgccagaggtggtgggttcaaacccagccctggccaaaaactgaaaaaaaaAATGTGATTTGTC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873   7 -  14377064 I
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9135735   7 -   9889416 I
e calJac3.chr21              26484638   0 +  50472720 C
e saiBol1.JH378168            8675573   0 +  13128814 C

a score=107004.000000
s hg38.chr21_GL383579v2_alt     84452 20 +    201197 TATATCACTTAAATATGAGA
s panTro5.chr21               8702809 20 +  33445071 TATATCACTTAAATATGAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242031 20 +  46275980 TATATCACTTAAATATGAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224627 20 -  13858734 TATATCACTTAAATATGAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253489 20 +  32716333 TATATCACTTAAATATGGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660039 18 - 185818997 TATATCACTTAA--ATGAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167296990 18 - 192294377 TATATCACTTAA--ATGAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920881 18 -  30496662 TATATCACTTAA--ATGAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445709 20 +  21915920 TATATCACTTAAATATGAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947166 20 -  90373283 TATATCACTTAAATATGAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450719 18 +   7543664 TGTATCACTTAA--ATGAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221835 20 -  13750039 TATATCACTTAAATATGAGA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24847148 20 -  38779656 TATATCAATCAACTATGACA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873  7 -  14377064 I
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9135735  7 -   9889416 I
e calJac3.chr21              26484638  0 +  50472720 C
e saiBol1.JH378168            8675573  0 +  13128814 C

a score=49401.000000
s hg38.chr21_GL383579v2_alt     84472 7 +    201197 TACTTCA
s panTro5.chr21               8702829 7 +  33445071 TACTTTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242051 7 +  46275980 TACTTTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224647 7 -  13858734 TACTTTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253509 7 +  32716333 TACTTTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660057 7 - 185818997 TTCTTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297008 7 - 192294377 TTCTTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920899 7 -  30496662 TTCTTTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445729 7 +  21915920 TACTTTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947186 7 -  90373283 CACTTTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450737 7 +   7543664 TTCTTTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221855 7 -  13750039 TACTTTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26484638 7 +  50472720 TACTTTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675573 7 +  13128814 TACTTTG
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24847168 7 -  38779656 TATTTTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13903873 7 -  14377064 I
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9135735 7 -   9889416 I

a score=3491614.000000
s hg38.chr21_GL383579v2_alt     84479 364 +    201197 CATCATTATCTTA-GGTTTTCACATATGTGTACCTTTTAAGGAGAATTA---AATAATTTTGGCATGAATAAAATATGAGTAGTGAA-CTGTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTATGTTGAGTAATATTGAAAATTGCATAAAAATGTCTTTGGTAGACTTTTAGTTtatctattagtatctat-------------------ccac--gtatcatt---tatc-------tgcctatctttctatgatgtatctatctatgtatttttgtatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATCTGAGCAACACAA-CTGGGGATATT---------TCTAGCCAAATAGAAAT-AAAAAAATCACAGAAACTGGTTTTGTATTTCG--------T
s panTro5.chr21               8702836 371 +  33445071 CATCATTATCTTA-GGTTTTCACATATGTGTACCTTTTAAGGAGAATTA---AATAATTTTGGCATGAATAAAATATGAGTAGTGAA-CTGTA-TACCTAGTCTAAATAGTTGAAAATTCAACACAAACTATTTCGAGTAATATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAGtttatctattagtatctat-------------------ccat--gtatcatt---tatcatttatttgcctatctttctatgaggtatctatctataaatttttatatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATCTTAGCAACACAA-TTGGGGATATT---------TCTAGCCAAATAGAAAT-AAAAAATTCACAGAAACTGGTTTTGTATTTCG--------T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242058 371 +  46275980 CATCATTATCTTA-GGTTTTCACATATGTGTACCTTTTAAGGAGAATTA---AATAATTTTGGCATGAATAAAATATGAGTAGTGAA-CTGTA-TACCTAGTCTAAATAGTTGAAAATTCAACACAAACTATTTCGAGTAATATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAGTTtatctattagtatctat-------------------ccat--gtatcatt---tatcatttatttgcctatctttctatgatgtatctatctatatatttttgtatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATCTTAGCAACACAA-TTGGGGATATT---------TCTAGCCAAATAGAAAT-AAAAAATTCACAGAAACTGGTTTTGTATTTCG--------T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8224654 367 -  13858734 CATCATTATCTTA-GGTTTTCACATATGTGTACCTTTTAAGGAGAATTA---AATAATTTTGGC-TGAATAAAATATGAGTAA-GAA-CTGTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAGCTATTTTGAGTAATATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAGTTTATCTATTAGCATCTATCTA----------------CCAC--GTATCATT---TATCA-TTATTTGCCTATCTTTCTATGATG----TACCTATATATTTTTGTATCCCTGTATTATAAGTAA--ATATAAGCTTACTAAAAGGATCTGAGCAACACAA-CTGGGGATATT---------TCTAGCCAAATAGAAAT-TAAAAAAACACAGAAACTGGTTTTGTATTTCG--------T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253516 386 +  32716333 CATCATTATCTTA-GGTTTTCACATATGTGTAACTTTTAAGTAGAATTA---AATAATTTTGGCATGAATAAAATATGAGTAGTGAA-CTGTA-TACCCAGTCAAAATAGTTGAAAATTCAACACAAACTATTTTGAGTGATACTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAGTTTTtctattagtatctatctatccacctatcatttatccac--ctatcatt---tatcatttatttgcctatctttctatgatg----tatcTACATATTTTTGTATCCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATCTGAGCAACACAA-CTGGGGATATT---------TCTAGCCAAACAGAAAT-AAAAAAATCACAGAAACTGGTTTTGTATTTCG--------T
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660064 374 - 185818997 CATCATTATCTTA-GCTTTTCACATATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATAAAATATGAGTAGTGAACCTTTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTGTTTTGAGTAACATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgcctatctttctatgatgtatctgtctatatatttttgtatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATGTGAGCAACACAA-CTGGGGGTATT---------TCTAGCCAAATAGAAAT---AAAAATCACAGAAACTGGTTTTGTATTTCG--------T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297015 374 - 192294377 CATCATTATCTTA-GCTTTTCACATATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATAAAATATGAGTAGTGAACCTTTA-TACTCAGTCTAAATAGTTGAAAATTCAACACAAACTATTTTGAGTAACATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgcctatctttctatgatgtatctatctatatatttttgtatcCCTGTAGTATAAGTAC--ATATAAGCTTACTAAAAGGATGTGAGCAACACAA-CTGGGGGTATT---------TCTAGCCAAATAGAAAT---AAAAATCACAGAAACTGGTTTTGTATTTCG--------T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4920906 374 -  30496662 CATCATTATCTTA-CCTTTTCACATATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATAAAATATGAGTAGTGAACCTTTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTATTTTGAGTAACATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgcctatctttctatgatgtatctgtctatatatttttgtatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATGTGAGCAACACAA-CTGGGGGTATT---------TCTAGCCAAATAGAAAT---AAAAATCACAGAAACTGGTTTTGTATTTCG--------T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13445736 362 +  21915920 CATCATTATCTTA-GCTTTTCACATATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATA--------------AACCTTTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTATTTTGAGTAATATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgcctatctttctatgatgtatctatctatacatttttgtatcCGTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATGCGAGCAACACAA-CTGGGGGTATT---------TCCAGCCAAATAGAAAT-AAAAAAATCACAGAAACTGGTTTTGCATTTCG--------T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947193 375 -  90373283 CATTATTATCTTA-GCTTTTCACATATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATAAAATATGAGTAGTGAACCTTTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTATTTTGAGTAATATTGAAAATTGCCTAAAAATGTCTTTGGTAGAATTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgcctatctttctatgatgtatctatctatatatttttgtatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATGGGAGCAACACAA-CTGGGGGTATT---------TCTAGCCAAATAGAAAT--AAAAAATCCCAGAAACTGGTTTTGTATTTCG--------T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3450744 374 +   7543664 CATCATTATCTTA-GCTTTTCACATATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATAAAATATGAGTAGTGAACCTTTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTATTTTGAGTAACATTGAAAATTGCCTAAAAATGTCTTTGGTAGACTTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgtctatctttctatgatgtatctatctatatatttttgtatcCCTGTATTATAAGTAC--ATATAAGCTTACTAAAAGGATGTGAGCAACACAA-CTGGGGGTATT---------TCTAGCCAAATAGAAAT---AAAAATCACAGAAACTGGTTTTGTATTTCG--------T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5221862 375 -  13750039 CATCATTCTCTTA-GCTTTTCACAGATGTGTAACTTTCAAGGAGAATTA---AATAATGTTGGCATGAATAAAATATGAGTAGTGAACCTTTA-TACCCAGTCTAAATAGTTGAAAATTCAACACAAACTATTTTGAGTAATACTGAAAATTGCCTAAAAATGTCTTTGGTAGACCTTTAatttatctattagtatctatctat---------------ccac--ctatcctt---tatcatttatctgcctatctttctatgatgtatctatctatatatttttgtatcCCTGTATTATAAGTAC--ACATAAGCTTACTAAAAGGATGTGAGCAACACAA-CTGGGGGTATT---------TCTAGCCAAATAGAAAT--AAAAAATCACAGACACTGGTTTTGTATTTCG--------T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26484645 381 +  50472720 CATCATTATTTTA-GTTTTTCACATCTGTGTAG-TTTTAAGGAGAATTA---AATAATTTTGGCATGAATAAAATATGAGTAGTGAACCTGTA-TATCCAGTCTAAATAGGTTAAAATTCAACACAAACTATTTTGAGTAATATTGAAGATTGGCTAAAAATGTCTTCGGTAGACTTTGAATGTGTCTATTAGtatctatctat---------------ctactagtatcaattagtattatttatctacctgtctttctatgatgtaactatctatatatttttgtatcCCTGTATTATAAGTAT--ATAAGAGCTTACTAAAAGAATCTAAGCAACACAA-TTAGGGATATT---------TCTAGCCAAACAGAAAT-AAATACATCACAGAAACTGGCTTTGTATTTACC-------t
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675580 388 +  13128814 CATCATTATTTTAGGTTTTTCACATATGTGCAACTTTTAAGGAGAATTA---AATAATTTTTGCATGAATAAAATATGAGTAGTGAACCTGTA-TATCCAGTCTAAATAGTTAAAAATTCAACGCAAACTATTTTGAGTAATATTGAAGATTGACTAAAAAGGTTTTTGGTAGAC--TGAATGTGTTTATTAGtatctatctat---------------ctactagtatcaattagtatcatttatctacatatctttctatgatttaactatctatgtatttttgtatcCCTGTATTATAAGTAT--ACAAGAGCTTACTAAAAGGATCTGAGCAACACAG-TTAGGGATATT---------TCTAGCCAAACAGAAAT-AAATACATCACAGAAACTGGTTTTGTATTTCCCtttttttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13903880 386 -  14377064 CATCATTATTTTAGGTTTTTCACATATGTGTAACTTTTAAGGAGAATTA---AATAATTTTGGCATGAATAAAATATGAGTAGTGAACCTGTA-TATCCAGTCTAAATAGTTAAAAATTCAACACAAACTATTTTGAGTAATATTGAAGATTGGCTAAAAATGTCTTTGGTAGACTTTGAATGTGtctattagtatctatcaat---------------ctactagtatcaattagtatcatttatctaactatctttctatgaggtaactatctatgtatTTTTGTGTCCCTGTATTATAAGTAT--ATAAGAGCTTACTAAAAGGATCTGAGCAACACAA-TTAGGGATATT---------TCTAGCCAAACAGAAAT-AAATACATCACAGAAACTGGtttttttatttcc----tttt
i cebCap1.NW_016107322v1    I 7 C 0
s aotNan1.NW_018487195v1      9135742 388 -   9889416 CATCATTATTTTAGGTTTTTCACATATGTGTAA--CTTAAGGAGAATTC---AATAATTTTGGCATGAATAAAATATGAGTAGTGAACCCGTA-TATCCAGTCTAAATAGTTAAAAATTCAACATAAACTATTTTGAGTAATATTGAAGACTGGCTAAAAATGTCTTTGGTAGACTTTGAATGTGtctattagtatctatctat---------------ctactagtatcaattagtatcatttatctacctatctttctatgatgtaactatctatgtatttttatatcCCTGTATTATACGTAT--ATAAGAGCTTACTAAAAGGATCTGAGCAACACAA-TTAGAGATATT---------TCTAGCCAAACAGAAAT-AAATACATCACAGAAACGGATTTTGTATTCCCCCCCACCtt
i aotNan1.NW_018487195v1    I 7 C 0
s otoGar3.GL873528           24847175 340 -  38779656 CA----TATCTTA-GATTTTCAGACACTTTCATTTTTTTAA-ACAATTAGATGATAATTTTGTAATATGTAAAATATGGTTAGTGAACCTGTGTTATCTAGCCCAAACAGCCAAAAATTCAATACAAACTACTTTAAGTAAGATTAAAAATTACC-AAAAAAATCTTTGGTAAACTTTTTAATTATCTA------------------------------TCAT--CT---------TGTC--------------------------TACTTATTCATATATTTCAGTATTCCCGTATTATAAGTATAAATATGTGGCTGCTAGACAGTGCTAAAAGACACAACCTGGAGATACTACGTAGAAATTTAGTCAAATAGAAATTTTTTGAATGCCGTAAACTAGTTTTGTATCTCA--------T
i otoGar3.GL873528          C 0 I 615
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I

a score=2867491.000000
s hg38.chr21_GL383579v2_alt     84843 330 +    201197 Gtttttttgagatggagtttcactctgtcgccccagctggagttcagtggcaggatctcagctcactaccacctccatctcccaggttccagcgattctcctacctcagcctcctcagtagctgggattacaggtgccagctaccacacccagctaaa------------ttttttgtg-tttttagtagagacagggtttcaccatattggccaggctggtctcgaactcctgacctcaagtgatccacccacctcagcctcccgaagtgctgggattacaggcctgagccaccacTGGTTTTGTATATCATC---AAAAAAATTACATTTCGATAAGTTAGTCA
s panTro5.chr21               8703207 330 +  33445071 Gtttttttgagatggagtttcactctgtcgccccggctggagttcagtggcaggatctcagctcactgccacctccacctcccaggttccagcgattctcctacctcagcctcctcagtagctgggattacaggtgccagccaccacacccagctaaa------------ttttttgtg-tttttagtagagacagggtttcaccatattggccaggctggtctcgaactcctgacctcaagtgatccacccacctcagcctcccgaagtgctgggattacaggccggagccaccacTGGTTTTGTATATCATC---AAAAAAATTACATTTCGATAACTTAGTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242429 330 +  46275980 Gtttttttgagatggagtttcactctgtcgccccggctggagttcagtggcaggatctcagctcactgccacctccacctcccaggttccagcgattctcctacctcagcctcctcagtagctgggattacaggtgccagccaccacacccagctaaa------------ttttttgtg-tttttagtagagacagggtttcaccatattggccaggctggtctcgaactcctgacctcaagtgatccacccacctcagcttcccgaagtgctgggattacaggccggagccaccacTGGTTTTGTATATCATC---AAAAAAATTACATTTCGATAACTTAGTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225021 327 -  13858734 Gtttttttgagatggagtttcactctgtcgccccagctggagttcagtggcaggatctcagctcactgccacctccacctcccaggttccag-gattttcctacctcagcctcttcagtagctgggattacaggtgccagccaccacacccagc--aa------------ttttttgtg-tttttagcagagacagggtttcaccatattggccaggctggtctcgaactcctgacctcaagtgatccacccacctcagcctcccgaagtgctgggattacaggcctgagccaccacTGGTTTTGTATATCATC---AAAAAAATTACATTTCGATAACTTAGTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9253902 329 +  32716333 GCttttttgagatggagtttcactctgtcgccccagctggagttcagtggcaggatctcagttctctgccacctccacctcccaggttccagcaattctcctacctcagcctcctcagtagctgggattacaggtgccagccaccacacccggct-aa------------ttttttgtg-tttttagtagagatggggtttcatcatattggccaggctggtctcgaacccctgacctcaagtgatccacccacctcggcctcccgaagtgctgggattacaggcctgagccaccacTGGTTTTGTATATCATC---AAAAAAATTACATTTCGATAACTTAGTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660438 327 - 185818997 Gtttttttgagaaggagtttcactctgtcgccctggctggagttcagtggcaggatctcagctcactgccacttccacctcccaggttccagcgattctcctgcctcagcctcctcagtagctgggattacaggtgcccgccaccatactcagct-aa------------ttttttgtgttttttagtaga-----ggtttcaccatattggtcagactggtcttgaactcctgacctcaagtggttcacccacctcggcctcccaaagtgctgggattacaggcctgagtcaccacTGGTTTTGTATACCATC-AAAAAAAAATTACATTTCGATAATGTAGTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297389 327 - 192294377 Gtttttatgagaaggagtttcactctgtcgccctggctggagttcagtggcaggatctcagctcactgccacttccacctcccaggttccagcgattctcctgcctcagcctcctcagtagctgggattataggtgcccgccaccatactcagct-aa------------ttttttgtgttttttagtaga-----ggtttcaccatattggtcagactggtcttgaactcctgacctcaagtggttcacccacctcggcctcccaaagtgctgggattacaggcctgagtcaccacTGGTTTTGTATACCATC-AAAAAAAAATTACATTTCGATAATGTAGTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921280 328 -  30496662 Gtttttttgagaaggagtttcactctgtcgccctggctggagttcagtggcaggatctcagctcactgccacttccacctcccaggttccagcgattctcctgcctcagcctcctcagtagctgggatcataggtgcccgccaccatactcagct-aa------------ttttttgtgttttttagcaga-----ggtttcaccatattggtcagactggtcttgaactcctgacctcaagtggttcacccacctcggcctcccaaagtgctgggattacaggcctgagtcaccacTGGTTTTGTATACCATCAAAAAAAAAAATACATTTCGATAATGTAGTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446098 325 +  21915920 Gtttttttgagatggagtttcactctgtcgccctggctggagttcagtggcaggatctcagctcactgccactgccacctcccaggttccagcgattctcctgcctcagcctcctcagtagctgggattataggtgcccgccaccatactcagct-aa------------ttttttgtgttttttagtaga-----ggtttcaccatattggccagactggtcttgaactcctgacctcaagtggttcacccacctcggcctcccaaagtgctgggattacaagcctgagtcaccacTAGTTTTGTATATCATC---AAAAAAATTACATTTCGATAATGTAGTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947568 326 -  90373283 Gtttttttgagatggagtttcactctgtcgccctggctagagttcagtggcaggatctcagctcactgccacttccacctcccaggttccagcgattctcctgactcagcctcctcagtagctgggattataggtgcccgccaccatactcagct-aa------------ttttttgttttttttagtaga-----ggtttcaccatattggccagactggtcttgaactcctgacctcaagtggttcacccgcctcggcctcccaatgtgctgggattacagacctgagtcaccacTGGTTTTGTATATCATC--AAAAAAAATTACATTTCGATAATGTAGTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3451118 327 +   7543664 Gtttttttgagaaggagtttcactctgtcgccctggctggagttcagtggcaggatctcagctcattgccacttccacctcccaggttccagcgattctcctgcctcagcctcctcagtagctgggattataggtgcccgccaccatactcagct-aa------------ttttttgtgttttttagtaga-----ggtttcaccatattggccagactggtcttgaactcctgacctcaagtggttcacccacctcggcctcccaaagtgctgggattacaggcctgagtcaccacTGGTTTTGTATACCATC-AAAAAAAAATTACATTTCGATAATGTAGTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5222237 326 -  13750039 Gtttttttgagatggagtttcactctgtcacccgggctggagttcagtggcaggatctcagctcactgccacctccacctcccaggttccagcgattctcctgcctcagcctcctcggtagctgggattataggtgcccgccaccacactctgct-ga------------ttttttgtgttttttagtaga-----ggtttcaccatattggccagactggtctcgaactcctgacctcaagtggttcacccacctcggcctcccaaagtgctgggattacaggcctgagtcaccacTGGTTTTGTATATCATC--AAAAAAAATTACATTTCGATAATGTAGTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485026 330 +  50472720 ttttttttgagatggaatttcactctgtcgc-caggctggagttcagtaacagaacctcggctcactgcaatctttgcctcccaggatccactgattctcctgcttcagcctctggagtagctgagtttacaagttcctgccattgcacctggtt-aa-----------tttttctgta-tttttagtagatactgggtttctccatgttggccaggctgttcttgaacttcttaactcatgtgatctgcctgcctcagcctctgaaagtgctggggttccaagcatgaaccaccTCTGGTTTTGTGTATCACA--GATAGAAATTACATTTAGATAActtagtca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8675968 333 +  13128814 ttttttttgagatggaatttcactctgtcacgcaggcttgagttcagtgacagaacctcagttcactgcaatctttgcctcccagggtccagtgagtctcctgcctcagcctctggagtagctgagtttacaggctcctgccaccacacctggtt-aa---------tttttttttgta-tttttagtagatactgggtttcaccatgtttgccaggctggtcttgaacttctgaactcatgtgatctgcctgcctcagcctctgaaagtgctgggtttgccagcatgaaccactgcTGGTTTTGTATATCACA--GATAAAAATTACATTTTGATAActtagtca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13904266 340 -  14377064 ttttttttgagatggaatttcattctgtcacccaggcttgagttcagtgacagaagctcagctcactgcaatctttacttcctagggtccagtgattctcctgcctcagcctctgaagtagttgagtttacaggttcctgccaccacacctggtt-aattttttttttttttttttgta-tttttagtagatactgggtttcaccatgttggccaggccggtctttaacttctgaactc--gtgatctgcctgcctcagcctctgaaagtgctgggtttgccagcatgaaccaacgcTGGTTTTGTATATCATA--GATAAAAATTACATTTTGATGActtagtca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136130 320 -   9889416 ttttttttgagatggaatttcactctgtcgccaaggctggagtt-agtgacagaaccccagctcactgcaatctttgcctcccagggtccagtgattttcctgcctcagcttctggagtagctgagtttacaggttccggccaccacacctagtt-aa------------ttttttgta-tttttagtagatactgggctttaccatgttagccaggctggtcttgaacttctgaactc---------acctgcctcagcctctgaaagtgctgggattgcaagcatgaaccaccacTGGTTTTGTATATCATG--GATAAAAATTACATTTCAATAActtagcca
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e otoGar3.GL873528           24847515 615 -  38779656 I

a score=8281.000000
s hg38.chr21_GL383579v2_alt     85173 1 +    201197 T
s panTro5.chr21               8703537 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242759 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225348 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254231 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660765 1 - 185818997 T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297716 1 - 192294377 T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921608 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446423 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947894 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3451445 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5222563 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485356 1 +  50472720 t
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8676301 1 +  13128814 t
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13904606 0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450 0 -   9889416 C
e otoGar3.GL873528           24847515 615 -  38779656 I

a score=124180.000000
s hg38.chr21_GL383579v2_alt     85174 20 +    201197 GTCATTCATTCAACCTTC-TT
s panTro5.chr21               8703538 20 +  33445071 GTCATTCATTCAACCTTC-TT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242760 20 +  46275980 GTCATTCATTCAACCTTC-TT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225349 20 -  13858734 GTCATTCGTTCAACCTTC-TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254232 20 +  32716333 GTCATTCATTCAACCTTC-TT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660766 20 - 185818997 GCCATTCATTCAACCTTC-TT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297717 20 - 192294377 GCCATTCATTCAACCTTC-TT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921609 20 -  30496662 GCCATTCATTCAACCTTC-TT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446424 20 +  21915920 GCCAGTCATTCAACCTTC-TT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947895 20 -  90373283 GCCATTCATTCAACCTTC-TT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3451446 20 +   7543664 GCCATTCATTCAACCTTC-TT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5222564 21 -  13750039 GCCATTCATTCAACCTTCTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485357 16 +  50472720 ----gtcattcaaccttc-ct
i calJac3.chr21             C 0 I 49
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13904606  0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450  0 -   9889416 C
e saiBol1.JH378168            8676302  0 +  13128814 C
e otoGar3.GL873528           24847515 615 -  38779656 I

a score=300130.000000
s hg38.chr21_GL383579v2_alt     85194 61 +    201197 TTTTGGGGCGGGG-------GGGCGGTGGgggatggagtcttactctgtcgcccaggctggagtgcag
s panTro5.chr21               8703558 61 +  33445071 TTCTGGGGCGGGG-------TGGGGGTGGgggatggagtcttactctgtcgcccggcctggagtgcag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242780 61 +  46275980 TTCTGGGGCGGGG-------TGGGGGTGGgggatggagtcttactctgtcgcccggcctggagtgcag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225369 58 -  13858734 TTTTGGGGCGG----------GGGGGTGGgggatggagtcttgctctgtcgcccaggctggagtgcag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254252 58 +  32716333 TTTTGGGGCAG----------GGGGGTGGgggatggagtcttgctctgtcgcccaggctggagtgcag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660786 64 - 185818997 TTTGGGGGGAGGA----GAGTGGGGGTGGgggacggagtcttgctctgtcgcccaggctggagtgcag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297737 64 - 192294377 TTTTGGGGGAGGA----GAGTGGGGGTGGgggacggagtcttgctctgtcgcccaggctggagtgcag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921629 64 -  30496662 TTTTGGGGGAGGA----GAGTGGGGGTGGgggacggagtcttgctctgtcgcccaggctggagtgcag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446444 64 +  21915920 TTTTGGGGGAGGA----GAATGGGGGTAGgggacggagtcttgctttgtcgctcaggctggagtgcag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947915 68 -  90373283 TTTTGGGGGAGGAGGATGGGTGGGGGTGGgggacggtgtcttgctctgccgcccaggctggagggcag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3451466 64 +   7543664 TTTTGGGGGAGGA----GAGTGGGGGTGGgggacggagtcttgctctgtcgcccaggctggagtgcag
i manLeu1.NW_012103476v1    C 0 I 898
s colAng1.NW_012120598v1      5222585 64 -  13750039 TTTTGGGGGGGGA----GGGTGGGGGTGGGCgacggagtcttcctctgtcgcccaggctggagtgaag
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13904606  0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450  0 -   9889416 C
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8676302  0 +  13128814 C
e otoGar3.GL873528           24847515 615 -  38779656 I

a score=937991.000000
s hg38.chr21_GL383579v2_alt     85255 232 +    201197 tggcgctatctcggctcactgcaagctctgcctcccgggttcatgccattctcctgcctcagcctcctgagtagctgggactacaggcgcccgccaccacgccc----ggctaa---------------t-ttttttttttgta-----------------------------tttttagtagagacggggtttcaccatgttagccaagatggtctcaatctcctgaccttgtgatccgcccgccttggcctcccaaagtgctgggattacaggcatgag
s panTro5.chr21               8703619 234 +  33445071 tggcgccgtctcggctcactgcaagctccgcctcccgggttcacgccactctcctgcctcagcctcccgagtagctgggactacaggcgcccgccaccacgccc----ggctaa-------------ttt-tttttttttttta-----------------------------tttttagtagagacggggtttcaccgttttagccagggtggtctcgatctcctgaccttgtgatccgcccgccttggcctcccaaagtgctgggattacaggcatgag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22242841 231 +  46275980 tggcgccgtctcggctcactgcaagctccgcctcccgggttcacgccattctcctgcctcagcctcccgagtagctgggactacaggcgcccgccaccacgccc----ggctaa-----------------ttttttttttgta-----------------------------tttttagtagagacggggtttcaccgttttagccagggtggtctcgatctcctgaccttgtgatccgcccgccttggcctcccaaagtgctgggattacaggcatgag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225427 230 -  13858734 tggtgccatctccgctcacggcaagctccgcctcccgggttcacgccattctcctgcctcagcctcctgagtagctgggactacaggcgcccaccaccacaccc----ggctaa------------------tttttttttgta-----------------------------tttttagtagagacggggtttcaccgtgttagccaggatggtctccatctcctgaccttgtgatccgcccgcctcggcctcccaaagtgctgggattacaggcgtgag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254310 247 +  32716333 tggcacaatctcagctcactgcaagctctgccgcccgggttcacaccattctcctgcctcagcctcctgagtagctgggactacaggcacccgccaccacgctc----ggctaaattttttttttttttt-ttttttttttgta-----------------------------tttttagtagagacggagtttcaccgtgttagccaggatggtctccatctcctgaccttgtgatccgcctgccatggcctcccaaagtgctgggattacaggcatgag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160660850 228 - 185818997 cggcacgacctcagctcacagcaagctccgcctcccgggctcccgccgttctcctgcctcagcttcctgagcagctgggactacaggcgcc-gccacctcgccc----aggtaa---------------g-tttttttttt--------------------------------tttctagtagacacgggctttcactgtgttaactagtatggtctcgatttcttgacttcgtgatccgcccgcctcggcctcccaaagtgctgggattacaggcttgag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167297801 228 - 192294377 cggcacgacctcagctcacagcaagctccgcctcccgggctcccgccattctcctgcctcagcttcctgagtagctgggactacaggcgcc-gccacctcgccc----aggtaa---------------g-tttttttttt--------------------------------tttctagtagagacgggctttcactgtgttaactggtatggtctcgatttcttgacttcgtgatccgcccgcctcggcctcccaaagtgctgggattacaggcgtgag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921693 229 -  30496662 cggcacgacctcagctcacagcaagctccgcctcccgggctcccgccattctcctgcctcagcttcctgagtagctgggactacaggcgcc-gccacctcgccc----aggtaa---------------gttttttttttt--------------------------------tttctagtagagacgggctttcactgtgttaactagtatggtctcgatttcttgacttcgtgatccgcccgcctcggcctcccaaagtgctgggattacaggcgtgag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446508 259 +  21915920 ccgcacgatcttagctcacagcaagctccgcctcccgggttcccgccattctccagcctcagcctcctgagtagctgggactacaggcgcc-gccaccacgccc----gggtaa---------------g-ttttttttcttttgtttttttgattttttttttttttttgtatttctagtagagatgggctttcaccgtgttaactaggatggtctccatctcttgacttc-tgatccgcccgcctcggcgtcccaaagtgctgggattacaggcatgag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19947983 238 -  90373283 tggcgtgatctcagctcacagcaagctccgcctcccgggttcccgccattctcctgcctcagcttcctgagtagctgggactacaggcgcc-gccacctcgccccggtaggtaa---------------g-tttttttttttttttt--------------------------tctctagtagagacgggctttcaccgtgttaactaggatggtctcgatctcttgacttcgtgatccgcccacctcagcctcccaaagtgctgggattacaggcgtgag
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5222649 243 -  13750039 ccccacgaactcagctcactgcaagctccgcctcccgggttcccgccattctcctgcctcagcctcccgagtagctgggactacaggcgccggccaccacgccc----gggtaa---------------g-tttttttgtttttttgtttttgta------------------tttctagtagagacgggctttcaccgtattaactaggatggtctcgatctcttgacttcgtgatctgcccgcctcagtctcccaaagtgctgggattacaggcgtaag
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13904606   0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450   0 -   9889416 C
e calJac3.chr21              26485373  49 +  50472720 I
e saiBol1.JH378168            8676302   0 +  13128814 C
e otoGar3.GL873528           24847515 615 -  38779656 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=29194.000000
s hg38.chr21_GL383579v2_alt     85487 6 +    201197 ccaccg
s panTro5.chr21               8703853 6 +  33445071 ccaccg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243072 6 +  46275980 ccaccg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225657 6 -  13858734 ccaccg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254557 6 +  32716333 ccaccg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160661078 6 - 185818997 ccaccg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167298029 6 - 192294377 ccactg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921922 6 -  30496662 ccactg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446767 6 +  21915920 ccactg
i cerAty1.NW_012002954v1    C 0 I 11
s chlSab2.chr2               19948221 6 -  90373283 ccactg
i chlSab2.chr2              C 0 I 11
s colAng1.NW_012120598v1      5222892 6 -  13750039 ccactg
i colAng1.NW_012120598v1    C 0 I 11
s otoGar3.GL873528           24848130 6 -  38779656 ccgaca
i otoGar3.GL873528          I 615 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cebCap1.NW_016107322v1     13904606 0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450 0 -   9889416 C
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8676302 0 +  13128814 C
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=-2350.000000
s hg38.chr21_GL383579v2_alt     85493 2 +    201197 -tg
s panTro5.chr21               8703859 2 +  33445071 -tg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243078 2 +  46275980 -tg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225663 2 -  13858734 -tg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254563 2 +  32716333 -tg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160661084 2 - 185818997 -tg
i rheMac8.chr3              C 0 I 815
s macFas5.chr3              167298035 2 - 192294377 -ct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921928 2 -  30496662 -ct
i macNem1.NW_012015021v1    C 0 C 0
s otoGar3.GL873528           24848136 2 -  38779656 ac-
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cerAty1.NW_012002954v1     13446773 11 +  21915920 I
e cebCap1.NW_016107322v1     13904606 0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450 0 -   9889416 C
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8676302 0 +  13128814 C
e colAng1.NW_012120598v1      5222898 11 -  13750039 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I
e chlSab2.chr2               19948227 11 -  90373283 I

a score=4765.000000
s hg38.chr21_GL383579v2_alt     85495 6 +    201197 tctggc-
s panTro5.chr21               8703861 6 +  33445071 cccggc-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243080 6 +  46275980 cccggc-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225665 6 -  13858734 ccctgc-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254565 6 +  32716333 cccggc-
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167298037 6 - 192294377 cccggG-
i macFas5.chr3              C 0 I 3
s macNem1.NW_012015021v1      4921930 6 -  30496662 cccggG-
i macNem1.NW_012015021v1    C 0 I 3
s otoGar3.GL873528           24848138 6 -  38779656 -ttggtc
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cerAty1.NW_012002954v1     13446773 11 +  21915920 I
e rheMac8.chr3              160661086 815 - 185818997 I
e cebCap1.NW_016107322v1     13904606 0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450 0 -   9889416 C
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8676302 0 +  13128814 C
e colAng1.NW_012120598v1      5222898 11 -  13750039 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I
e chlSab2.chr2               19948227 11 -  90373283 I

a score=-100.000000
s hg38.chr21_GL383579v2_alt     85501 1 +    201197 -c
s panTro5.chr21               8703867 1 +  33445071 -c
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243086 1 +  46275980 -c
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225671 1 -  13858734 -c
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254571 1 +  32716333 -c
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167298046 1 - 192294377 -C
i macFas5.chr3              I 3 C 0
s macNem1.NW_012015021v1      4921939 1 -  30496662 -C
i macNem1.NW_012015021v1    I 3 C 0
s cerAty1.NW_012002954v1     13446784 1 +  21915920 -C
i cerAty1.NW_012002954v1    I 11 C 0
s chlSab2.chr2               19948238 1 -  90373283 -C
i chlSab2.chr2              I 11 C 0
s colAng1.NW_012120598v1      5222909 1 -  13750039 -C
i colAng1.NW_012120598v1    I 11 C 0
s otoGar3.GL873528           24848144 1 -  38779656 a-
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e rheMac8.chr3              160661086 815 - 185818997 I
e cebCap1.NW_016107322v1     13904606 0 -  14377064 C
e canFam3.chr31              18025652 718 +  39895921 I
e aotNan1.NW_018487195v1      9136450 0 -   9889416 C
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8676302 0 +  13128814 C
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=2308.000000
s hg38.chr21_GL383579v2_alt     85502 1 +    201197 T
s panTro5.chr21               8703868 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243087 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225672 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254572 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167298047 1 - 192294377 C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921940 1 -  30496662 C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446785 1 +  21915920 C
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19948239 1 -  90373283 C
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5222910 1 -  13750039 C
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13904606 1 -  14377064 t
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136450 1 -   9889416 t
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24848145 1 -  38779656 t
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e rheMac8.chr3              160661086 815 - 185818997 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8676302 0 +  13128814 C
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=33352.000000
s hg38.chr21_GL383579v2_alt     85503 7 +    201197 gtcattc
s panTro5.chr21               8703869 7 +  33445071 gtcattc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243088 7 +  46275980 gtcattc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225673 7 -  13858734 gtcattc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254573 7 +  32716333 gtcattc
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167298048 6 - 192294377 ATAATT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4921941 6 -  30496662 ATAATT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13446786 7 +  21915920 ATCATTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19948240 7 -  90373283 ATCATTC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5222911 7 -  13750039 GTCATTC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8676302 7 +  13128814 gtcattc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13904607 7 -  14377064 gttattc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136451 7 -   9889416 gtcattc
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24848146 7 -  38779656 gtcatta
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23674791 377 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e rheMac8.chr3              160661086 815 - 185818997 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=92515.000000
s hg38.chr21_GL383579v2_alt     85510 18 +    201197 aatctt-cttatactacag
s panTro5.chr21               8703876 18 +  33445071 aatctt-cttatactacag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243095 18 +  46275980 aatctt-cttatactacag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225680 18 -  13858734 aatctt-cttatactacag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254580 18 +  32716333 aatctt-cttatactacag
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13446793 18 +  21915920 AGCGTT-CTTATACTACAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19948247 18 -  90373283 AGCCTT-CTTATACTACAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5222918 19 -  13750039 AGCCTTCCCTTTACTACAG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8676309 18 +  13128814 aacctt-cctatactacag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13904614 18 -  14377064 aacctt-cctatactgcag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136458 18 -   9889416 aacctt-cctatactacag
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23675168 18 +  47401472 AATCTT-TCTACACTACAG
i micMur3.chr31             I 377 C 0
s otoGar3.GL873528           24848153 16 -  38779656 aatctt-tctacact--ag
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e macNem1.NW_012015021v1      4921947  0 -  30496662 C
e macFas5.chr3              167298054  0 - 192294377 C
e rheMac8.chr3              160661086 815 - 185818997 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=1558770.000000
s hg38.chr21_GL383579v2_alt     85528 176 +    201197 tttcctcttccaaaagcagggcaaatacctacctaatagaattattTCAAATGTCATGTATTAAATACACAATGGTGTTCTTTTTT--TTTCC-TTGCTCTCTGCATATACCTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAAAAAAATTGTAGCAAG
s panTro5.chr21               8703894 175 +  33445071 tttcctcttccaaaagcagggcaaatacctacctaatagaattattACAAATGTCTTGTATTAAATACACAATGGTGTT-TTTTTT--TTTCC-TTGCTCTCTGCATATACCTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAAATTGTAGCAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243113 174 +  46275980 tttcctcttccaaaagcagggcaaatacctacctaatagaattattTCAAATGTCTTGTATTAAATACACAATGGTGT--TTTTTT--TTTCC-TTGCTCTCTGCATATACCTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAAATTGTAGCAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225698 176 -  13858734 tttcctcttccaaaagcagggcaaatacctacctaatagaattattTCAAATGTCATGTATTAAATACACAATGGTGTTCTTTTTT--TTTCC-TTGCTCTCTGCATATACATCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAAATTGTAGCAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254598 176 +  32716333 tttcctcttccaaaagcagggcaaatacctacctaatagaattattTCAAATGTCGTGTATTAAATACACAATGGTGTTCTTTTTT--TTTCC-TTGCTCTCTGCATATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATGAAAGCATAAATAAATTTGTAGTAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160661901 175 - 185818997 TTTCCTCTTCCAAAAGCAAGGCAAATACCCACCTAATAGAATTATTTCAAATGTCATGTATTAAATACACAACGGTGTTCTTTTTT---TTCC-TTGCTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAATATGTAGCAAG
i rheMac8.chr3              I 815 I 3
s macFas5.chr3              167298054 175 - 192294377 TTTCCTCTTCCAAAAGCAAGGCAAATACCCACCTAATAGAATTATTTCAAATGTCATGTATTAAATACACAACGGTGTTCTTTTTT---TTCC-TTGCTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAATATGTAGCAAG
i macFas5.chr3              C 0 I 3
s macNem1.NW_012015021v1      4921947 175 -  30496662 TTTCCTCTTCCAAAAGCAAGGCAAATACCCACCTAATAGAATTATTTCAAATGTCATGTATTAAATACACAACGGTGTTCTTTTTT---TTCC-TTGCTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAATATGTAGCAAG
i macNem1.NW_012015021v1    C 0 I 3
s cerAty1.NW_012002954v1     13446811 172 +  21915920 TTTCCTCTTCCAAAAGCAAGGCAAATACCCACCTAACAGAATTATTTCAAATGTCGTATATTAAATACACAATGGTG---TTTTTT---TTCC-TTGCTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAGATATGTAGCAAG
i cerAty1.NW_012002954v1    C 0 I 3
s chlSab2.chr2               19948265 176 -  90373283 TTTCCTCTTCCAAAAGCAAGGCAAATACCCACCTAATAGAATTATTTCAAATGTCGTATATTAAATACACAATGGTGTTCTTTTTT--GTTCC-TTGCTCTCTGTGTATATGTACTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTACCATCAAAGCATAAATAAATATGTAACAAG
i chlSab2.chr2              C 0 I 3
s colAng1.NW_012120598v1      5222937 176 -  13750039 TTTCCTTTTCCAAAAGCAAGGCAAATACCCACCTAATAGAATTATTTCAAATGTCGTATATTAAATACACAATGGTGTTCTTTTTT--TTCCC-TTGCTCTTTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAACTTGCCATCAAAGCATAAATAAATATGTAGCGAG
i colAng1.NW_012120598v1    C 0 I 3
s saiBol1.JH378168            8676327 175 +  13128814 tttcctcttccaaaaacatggcaaatagctacctaacagaattattTCAAATACCGTATATTAAATACACAATGGTGTTATTT--T--TTTCCGTTGCTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAAGTTACCATCAAAGCATAAATAAATTTATAGCAAG
i saiBol1.JH378168          C 0 I 3
s cebCap1.NW_016107322v1     13904632 177 -  14377064 tttcctcttccaaaagcagggcaaatagctacctaacagaattattttgaATACCGTATATTAAATATACAATGGTGTTATTTTGT--TTTCCGTTGTTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAAGTTACCATCAAAGCATAAATAAATTTATAGCAAG
i cebCap1.NW_016107322v1    C 0 I 3
s aotNan1.NW_018487195v1      9136476 177 -   9889416 tttcctcttccaaaagcagggcaaatagctacctaacagaattatttcaaataccgtatatgaaaTACACAATGGTGTTACTTTGT--TTTCCGTTGCTCTCTGTGTATATGTCCTGATTAGTTCTGT--TTCCCTAATCCTTCAAAGTTACCATCAAAGCATAGATAAATTTATAGCAAG
i aotNan1.NW_018487195v1    C 0 I 3
s micMur3.chr31              23675186 180 +  47401472 TTTCCTCTTCCAAAAGTAGGGCAAATGTCTTTCTAATAGAATTATTTTAAATATCATATACTAAATGCACAAAGTTTCCATTTTGTCCTTTTC-TTGCTCTCTGTGTATACTTCCTGATTGGTTCTATGTTTCCCTAAACATTCAAATTTACCATCAAAGCATAAATAAATTTGTAGGGAG
i micMur3.chr31             C 0 I 28
s otoGar3.GL873528           24848169 178 -  38779656 tttcctctccccaaagcaggaaaaata-ctacctaatagaattattttaaatgtcatgtattaaatgaagaatgcTACCATTTTGG-TTTTTC-TTAATCTCTGTGTGTACTTCCTGGTTGATTCTATTCTTCCCTATGCAATCAAATTTACCATCAAAGCATAAATAAATTTGTAAAAAG
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373  49 +  50472720 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=176914.000000
s hg38.chr21_GL383579v2_alt     85704 26 +    201197 --GTATTTTTAACTATAAAACAAAAGGT
s panTro5.chr21               8704069 26 +  33445071 --ATATTTTTAACTATAAAACAAAAGGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243287 26 +  46275980 --ATATTTTTAACTATAAAACAAAAGGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225874 26 -  13858734 --ATATTTTTAACTATAAAACAAAAGGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254774 26 +  32716333 --ATATTTTTACCTATAAAACAAAAGGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160662079 25 - 185818997 --ATA-TTTAACCTATAAAACAAAAGGT
i rheMac8.chr3              I 3 C 0
s macFas5.chr3              167298232 26 - 192294377 --ATATTTTAACCTATAAAACAAAAAGT
i macFas5.chr3              I 3 C 0
s macNem1.NW_012015021v1      4922125 26 -  30496662 --ATATTTTAACCTATAAAACAAAAGGT
i macNem1.NW_012015021v1    I 3 C 0
s cerAty1.NW_012002954v1     13446986 26 +  21915920 --ATATTTTTACCTACAAAACAAAAGGT
i cerAty1.NW_012002954v1    I 3 C 0
s chlSab2.chr2               19948444 26 -  90373283 --ATATTTTTACCTATAAAACAAAAGGG
i chlSab2.chr2              I 3 C 0
s colAng1.NW_012120598v1      5223116 26 -  13750039 --ATATTTTTACCTGTAAAACAAAAGGT
i colAng1.NW_012120598v1    I 3 C 0
s saiBol1.JH378168            8676505 26 +  13128814 --GTGCTTTTACCTATAAGGCGAAAGGT
i saiBol1.JH378168          I 3 C 0
s cebCap1.NW_016107322v1     13904812 26 -  14377064 --GTGTTTTTACCTATAAGACAAAAGGT
i cebCap1.NW_016107322v1    I 3 C 0
s aotNan1.NW_018487195v1      9136656 26 -   9889416 --GTGTTTTTACCTATAAGACAAAAGGT
i aotNan1.NW_018487195v1    I 3 C 0
s otoGar3.GL873528           24848347 26 -  38779656 ACACTGTTTTACATGTAAAATAAGAG--
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23675366 28 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=931011.000000
s hg38.chr21_GL383579v2_alt     85730 118 +    201197 TCATTGCCCTTTGTGTTCGATTAatttatttattcatcgaagacatactttagtaaacat--atgtatatgc----caccgttataggtactag--aaaaaaatagttttaaacaagaaagacaag
s panTro5.chr21               8704095 118 +  33445071 TCATTGCCCTTTGTGTTTGATTAATTTatttattcatcgaagacatactttagtaaacat--atgtatatgc----caccgttataggtactag--aaaaaaatagttttaaacaaaaaagacaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243313 118 +  46275980 TCATTGCCCTTTGTGTTTGATTAATTTatttattcatcgaagacatactttagtaaacat--atgtatatgc----caccgttataggtactag--aaaaaaatagttttaaacaagaaagacaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8225900 118 -  13858734 TCATTGCCCTTTGTGTTTGATTAATTTatttattcatcgaagacatactttggtaaacat--atgtatatgc----caccgttataggtactag--aaaaaaatagttttaaataagaaagacaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254800 118 +  32716333 TCATTGCCCTTTGTGTTTGATTAATTTatttattcatcgaagacataatttagtaaacat--atgtatatgc----cactgttataggtactag--aaaaatatagttttaaataagaaagacaag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160662104 118 - 185818997 TAATTGCTCTTTGTGTTTGATTAATTTATTTATTCATCTAAGACATAATTTAGTAAACAT--ATGTATATGC----CACCGTTATGGGTACTAG--AAAAAAATAGTTTTAAATAAGAAAGACAAG
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167298258 118 - 192294377 TAATTGCTCTTTGTGTTTGATTAATTTATTTATTCATCTAAGACATAATTTAGTAAACAT--ATGTATATGC----CACCGTTATGGGTACTAG--AAAAAAATAGTTTTAAATAAGAAAGACAAG
i macFas5.chr3              C 0 I 340
s macNem1.NW_012015021v1      4922151 118 -  30496662 TAATTGCTCTTTGTGTTTGATTAATTTatttattcatctaagacataatttagtaaacat--atgtatatgc----caccgttatgggtactag--aaaaaaatagttttaaataagaaagacaag
i macNem1.NW_012015021v1    C 0 I 333
s cerAty1.NW_012002954v1     13447012 118 +  21915920 TCACTGCCCTTTGTGTTTGATTAATTTatttattcatctaagacataatttagtaaacat--atgtatatgc----caccgttatgggtactag--aaaaaaatagttttaaataagaaagacaag
i cerAty1.NW_012002954v1    C 0 I 326
s chlSab2.chr2               19948470 116 -  90373283 TCATTGCTCTTTGTGTTTGATTAATTTATTTATTAATCTAAGACATAATTTAGTAAACAT--ATGTATA--C----AACCGTTATGGGTACTAG--AAAAAAATAGTTTTAAATAAGAAAGACAAG
i chlSab2.chr2              C 0 I 330
s colAng1.NW_012120598v1      5223142 114 -  13750039 TCATTGCCCTTTGTGT----TTAATTTatttattcatctaagacataatttagtaaacat--atgtatatgc----caccgttatgggtactag--aaaaaaatagttttaaataagaaagacaag
i colAng1.NW_012120598v1    C 0 I 319
s saiBol1.JH378168            8676531 119 +  13128814 TCATTGCC----CTGTTTTATTAATTTACTGattcatctaagacataatttgg-aaacat--acgtatatgccaaacattgttataggtattagaaaaaaaagtggttttaaataagaaaaacaag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13904838 116 -  14377064 TCATTGCCCTTTCTGTTTTATTAATTTattgattcatctaagacataatttgg-aaacat--acgtatatgccaaacaccgttataggtattag--aaaaaagtggtttaaaat-----aaacaag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136682 121 -   9889416 TCATTGCCCTTTCTGTTTTATTAATGTattgattcatctaagacataatttgg-aaacat--acgtatatgccaaacactgttataggtattag--aaaaaagtgattttaaataaggaaaacaag
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23675394 125 +  47401472 TCATTGTCCATTGTGTTCTATTAATTTattgatttgtctaacacataatttaataaatatacatgtatatgccaaactctgctctaggcactaa-aaaaagaacagtggtcaacaagaaagataag
i micMur3.chr31             I 28 C 0
s otoGar3.GL873528           24848373 116 -  38779656 TCATTACCTA-TATGTTCTATTAATTTattggtttatctaatgtataatttaataaacat--aggtacatgccaaact---ctctaggcact----agaataactgtagtcaacaagaaaggtaag
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373  49 +  50472720 I
e manLeu1.NW_012103476v1      3451530 898 +   7543664 I

a score=-15705.000000
s hg38.chr21_GL383579v2_alt     85848  3 +    201197 c--------ta
s panTro5.chr21               8704213  3 +  33445071 c--------ta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243431  3 +  46275980 c--------ta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226018  3 -  13858734 c--------ta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254918  3 +  32716333 c--------ta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160662223  3 - 185818997 C--------TA
i rheMac8.chr3              I 1 I 342
s macFas5.chr3              167298716  3 - 192294377 C--------TA
i macFas5.chr3              I 340 C 0
s macNem1.NW_012015021v1      4922602  3 -  30496662 c--------ta
i macNem1.NW_012015021v1    I 333 C 0
s cerAty1.NW_012002954v1     13447456  3 +  21915920 c--------ta
i cerAty1.NW_012002954v1    I 326 C 0
s chlSab2.chr2               19948916  3 -  90373283 C--------TA
i chlSab2.chr2              I 330 C 0
s manLeu1.NW_012103476v1      3452428  3 +   7543664 C--------TA
i manLeu1.NW_012103476v1    I 898 C 0
s colAng1.NW_012120598v1      5223575  3 -  13750039 c--------ta
i colAng1.NW_012120598v1    I 319 C 0
s saiBol1.JH378168            8676650  2 +  13128814 c--------t-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13904954  5 -  14377064 c-----tttt-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136803 10 -   9889416 cttttttttt-
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23675519  3 +  47401472 --------cta
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24848489  3 -  38779656 --------gta
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=721842.000000
s hg38.chr21_GL383579v2_alt     85851 68 +    201197 tttttttctaacagagtttactgactagaggagaatatggataataaatagactatgaaatgaattta
s panTro5.chr21               8704216 65 +  33445071 tttttttctaacagagtttactgactagaggagaatatgg---ataaatagactatgaaatgaattta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243434 65 +  46275980 tttttttctaacagagtttactgactagaggagaatatgg---ataaatagactatgaAATGAATTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226021 66 -  13858734 tttttttctaac--agtttactgactagaggagaatatggataataaatagactatgaaatgaattta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254921 68 +  32716333 tttttttctaacagagtttactgactagaggagaatatggataataaatagactatgaaatgaattta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160662568 68 - 185818997 TTTTTTTctaacagagcttactcactggaggagaatatggataataaatagactatgaaatgaattta
i rheMac8.chr3              I 342 C 0
s macFas5.chr3              167298719 68 - 192294377 TTTTTTTCTAACAGAGCTTACTCACTGGAGGAGAATATGGATAATAAATAGACTATGAAATGAATTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4922605 68 -  30496662 tttttttctaacagagcttactcactggaggagaatatggataataaatagactatgaaatgaattta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13447459 68 +  21915920 tttttttctaacagagcttactcactggaggagaatatggataataaatagactatgaaatgaattta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19948919 68 -  90373283 TTTTTTTCTAACAGCACTTACTGACTGGAGGAGAATATGGATAATGAATAGATTATGAAATGAATTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3452431 68 +   7543664 TTTTTTTctaacagagcttactgactggaggagaatatggataataaatagactatgaaatgaattta
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5223578 68 -  13750039 tttttttctaacagggcttacttactggaggagaatatggataataaatagaccatgaaataaattta
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8676652 68 +  13128814 tttttttctaacaaagcttgctgactagagaagaatatggataataaatatactataaaatgaattta
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13904959 68 -  14377064 tttttttctaacagagcttactgactagaggagaatatggataatgaatatactataaaatgaattta
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136813 68 -   9889416 tttttttctaacagagcttactgactagaggagaatatggataataaatataccataaaataaattta
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23675522 67 +  47401472 -ttttttctaacagagcttactgactagagcagaatacagataataaagagactataaaataaattta
i micMur3.chr31             C 0 I 397
s otoGar3.GL873528           24848492 68 -  38779656 tttttttctaagagggcttgctgactagagcagaatacaggcaataaatagactataaagtaaattta
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=3696860.000000
s hg38.chr21_GL383579v2_alt     85919 421 +    201197 attacagcggtaagtactctaaataaatcaaagcatggtaatgagatagagaatcattgaagtcta------ttta-----tatggtacttaggaggggtattttcaattaattcctattaagacagagacctgaataagtgga-gagacaattatgtgaatatttggggaata-------attacctaggaag--aaaaaaAGTTGAGAAAGCCAAAATAGCATTGATATAGTTGTATTACATCAGATCGGTATGATTATAGAAATAAAAGTTTAATAACAgaggaacttgatagaaaacgaagctgaggaaacacatacagatggaatcccggaaggcctcatgtgaa-ttatggtaagaattttaaattgtatttaatatttaaggtgctagagtattgagaccaaatg--ac----aaaaaaaaaatgaat-tgtgtttttaaaag
s panTro5.chr21               8704281 418 +  33445071 attacagcggtaagtactctaaataaatcaaagcatggtaatgagat----aatcatgaaagtcta-----tttta-----tatggtacttaggaggggtattttcaattaattcctattaagacagagacctgaataagtgga-gagagaattatgtgaatatttggggaaTA-------ATTACTTAGGAAG--AAAAAAAGTTGAGAAAGCCAAAATAGCATTGATATAGCTGTATTACATCAGCTCGGTATGATTATAGAAATAAAAGTTTAATAACAgaggaacttgatagaaaacgaagctgaggaaacacatacagatggaatcccggaaggcctcatgtgaa-ttatggtaagaattttaaactgtatttaatatttaaggtgctagagtattgagaccaaatg--ac----aaaaaaaaaatgaat-tgtgtttttaaaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243499 417 +  46275980 ATTACAgcggtaagtactctaaataaatcaaagcatggtaatgagat----aatcatgaaagtcta-----tttta-----tatggtacttaggaggggtattttcaattaattcctattaagacagagacctgaataagtgga-gagagaattatgtgaatatttggggaaTA-------ATTACTTAGGAAG--AAAAAAAGTTGAGAAAGCCAAAATAGCATTGATATAGCTGTATTACATCAGCTCGGTATGATTATAGAAATAAAAGTTTAATAACAgaggaacttgatagaaaacgaagctgaggaaacacatacagatggaatcccggaaggcctcatgtgaa-ttatggtaagaattttaaactgtatttaatatttaaggtgctagagtattgagaccaaatg--ac-----aaaaaaaaatgaat-tgtgtttttaaaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226087 428 -  13858734 attacagtggtatgtactctaaataaatcaaagcatggtaatgagatagagaatcatgaaagtcta-----ttttatattttatagtacttaggaggggtattttcaattaattcctattaagacagagacctgaagaagtgga-gagacaattatgtgaatatttggagaata-------attacctaggaag--aaaaaaAGTTGAGAAAGCCAAAATAGCATTGATATAGTTGTATTACACCAGTTCGGCATGATTATAGAAATAAAAGTTTAATAACAgaggaacttgatagaaaacgaagctgaggaaacacatatagatggaatcccggaaggcctcatgtgaa-ttatggtaagaattttaaattgtatttaatatttaaggtgctagagtattgagaccaaatg--aca---aaaaaaaaaatgaat-tgtgttttaaaaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9254989 423 +  32716333 attacagtggtaagtactctaaataaatcaaagcatggtaatgagatagagaatcatgaaagtcta-----tttta-----tatggtacttaggaggggtattttcaattaattcctattaagacagagacctgaataagtgga-gagacaattatgtgaatatttggaaaata-------attacctaggaagaaaaaaaaaattgagaaagccAAAATAGCATTGATATAGTTGTATTACATCAGTTCAGTATGATTATAGAAATAAAAGTTTAATAACAgaggaacttgatagaaaacgaagctgaggaaacacagatagatggaatcccgaaaggcctcatgtgaa-ttatggtaagaattttaaattgtatttaatatttaaggtgctagagtattgagaccaaatg--ac-----aaaaaaaaatgaat-tgtgttttaaaaag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160662636 426 - 185818997 attatagtggtaagtactctaaataaatcaaagcatggtaatgagatagagaatcatgaaagtcta-----tttta-----tatggtacttaggagggatattttcaattaattcctattaagaaagagacctgaataagtgga-gagacaattatgtgaatatttggagaata-------attacctaggaag--agaaaaAGTTGAGAAAGCCAAAATACCATAGATATTGTTGTATTACATCAGTTTGGTATGATTATAGAAATGAAAGTTTAATAACAggggaacttgatagaaaacgaagctgaggaaacacatatagatggaatcccgaaaggcctcatgtgaa-ttgtggtaagaattttaaattgtatttaatatttaaggtgccagagtattgagaccaaatg--acacacacacacaaaatgaat-tgtgttttaaaaac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167298787 426 - 192294377 ATTATAGTGGTAAGTACTCTAAATAAATCAAAGCATGGTAATGAGATAGAGAATCATGAAAGTCTA-----TTTTA-----TATGGTACTTAGGAGGGATATTTTCAATTAATTCCTATTAAGAAAGAGACCTGAATAAGTGGA-GAGACAATTATGTGAATATTTGGAGAATA-------ATTACCTAGGAAG--AGAAAAAGTTGAGAAAGCCAAAATACCATAGATATTGTTGTATTACATCAGTTTGGTATGATTATAGAAATCAAAGTTTAATAACAggggaacttgatagaaaacgaagctgaggaaacacatatagatggaatcccaaaaggcctcatgtgaa-ttgtggtaagaattttaaattgtatttaatatttaaggtgccagagtattgagaccaaatg--acacacacacacaaaatgaat-tgtgttttaaaaac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4922673 426 -  30496662 attatagtggtaagtactctaaataaatcaaagcatggtaatgagatagggaatcatgaaagtcta-----tttta-----tatggtacttaggagggatattttcaattaattcctattaagaaagagacctgaataagtgga-gagacaattatgtgaatatttggagaata-------attacctaggaag--agaaaaAGTTGAGAAAGCCAAAATACCATAGATATTGTTGTATTACATCAGTTTGGTATGATTATAGAAATCAAAGTTTAATAACAggggaacttgatagaaaacgaaggtgaggaaacacatatagatggaatcccgaaaggcctcatgtgaa-ttgtggtaagaattttaaattgtatttaatatttaaggtgccagagtattgagaccaaatg--acacacacacacaaaatgaat-tgtgttttaaaaac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13447527 426 +  21915920 attacagtggtaaatactctaaataaatcaaagcatggtaatgagatagagaatcatgaaagtcta-----tttta-----tatggtacttaggagggatattttcaattaattcctattaagaaagagacctgaataagtgga-gagacaattatgtgaatatttggagaata-------attacctaggaag--aaaaaaAGTTGAGAAAGCCAAAATACCATTGATATTGTTGTATTACATCAGTTCGGTATGATTATAGAAATCAAAGTTTAATAACAggggaacttgatagaaaacgaagctgaggaaacacatatagatggaatcccgaaaggcctcatgtgaa-ttgtggtaagaattttaaattgtatttaatatttaaggtgccagagtattgagaccaaatg--acacacacacacaaaatgaat-tgtgttttaaaaac
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19948987 426 -  90373283 ATTACAGTGGTAAGTACTCTAAATAAATCAAAGCATGGTAATGAGATAGAGAATCATGAAAGTCTA-----TTTTA-----TATGGTACTTAGGAGGGATATTTTCAATTAATTGCTATTAAGAAAGAGACCTGAATAAGTGGA-GAGACAATTATGTGAATATTTGGAGAATA-------ATTACCTAGGAAG--AAAAAAAGTTGAGAAAGCCAAAATATCATTGATA---TTGTATTACATCAGTTCGGTATGATTATAGAAATCAAAGTTTAATAACAGGGGAACTTGATAGAAAACGAAGCTGAGGAAACACATATAGATGGAATCCCGAAAGACCTCATGTGAATTTGTGGTAAGAATTTTAAATTGTATTTAATATTTAAGGTGCTAGAGTATTGAGACCAAATGACACACACACACACAAAAtgaat-tgtgttttaaaaac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3452499 424 +   7543664 attacagtggtaagtactctaaataaatcaaagcatggtaatgagatagagaatcatgaaagtcta-----tttta-----tatggtacttaggagggatattttcaattaattcctattaagcaagagacctgaataagtgga-gagacaattatgtgaatatttggagaata-------attacctaggaag--aaaaaaAGTTGAGAAAGCCAAAATACCATTGATATTGTTGTATTACATCAGTTCGGTATGATTATAGAAATCAAAGTTTAATAAC--gggaacttgatagaaaacgaagctgaggaaacacatatagatggaatcccgaaaggcctcatgtgaa-ttgtggtaagaattttaaattgtatttaatatttaaggtgccagagtattgagaccaaatg--acacacacacacaaaatgaat-tgtgttttaaaaac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5223646 425 -  13750039 attatagtggtaagtactctaaataaatcaaagcatggtaatgacatagagaatcatgaaagtcta-----tttta-----catggtacttaggagggatattttcaattaattcctattaagaaagagacctgaataagtgga-gagataattatgtgaatatttggagaaTA-------ATTACTTAGGAAG--AAAAAAAGTTGAGAAAGCCAAAATACCATTGATATTGTTGTATTACATCAGTTCGGTGTGATTATAGAAATCAAAGTTTAATAACAgaggaacttgatagaaaacgaagctgaggaaacacatatagatggaatcccaaaaggcctcacgtgaa-ttgtggtaagaattttaaattgtatttaatatttaaggtgctagagtattgagaccaaatg--acacacaca-aaaaaatgaat-tgtgttttaaaaac
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8676720 413 +  13128814 attacagtggtaagtactctaaatgaatcaaagcatagtaatgagatagagaaacatgaaggtcta-----tttta-----tatggtacttaggagaggtatttttaaataattcctatttaaacagacacctgagtaaatgaa-gaggcagttatttgaatgtttggagaata-------attacataggaag--aaaaaaagttgcaaaagtcAAAAGAGCATTGGTATGGTTGTATTACATCAGTTTGGTATGATTATAGAAATAAAAGTTTAATA---GAGGAACTAgatagaaaatgaagcagaagaaacacatatagactgagtcctgaaagtcctcatgtgaa-tcatggtaagaattttaaattgtatttaatatttgaggtgttagagtattgagacagaatg--ac-------acaaatataaag-tgtgtttt---aag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13905027 414 -  14377064 attacagtggtaagtactctaaataaatcaaagtatactaatgagatagagaatcatgaagatcta-----tttta-----tatagtacttaggagaggtatttttaaacaattcctatttaaacagatacctgaataaatgaatgaggcagttatttgaatgtttggagaaTA-------ATTACATAGGAAG--AAAAAAAGTTGAGAAAGCCAAAAAAGCATTGGTATGGTTGTATTACATCAGTTTGGTGTGATTATGGAAATAAAAGTTTAATA---gaggaacttgatagaaaatgaagctgaagaaacacatatagactgagccctgaaagccctcatgtgaa-tcatggtaagaattttaaattgtatttaatatttgaggtgttagagtattgagacagaatg--ac-------aaaaatataaag-tgtgtttt---aag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9136881 411 -   9889416 attacagcggtaagtactctaaataaatcaaagcatagtaatgagatagagaatcatgaaggtcta-----tttta-----tatggtacttaggagaggtatttttaaacaattcctatttgaacagagacctgaataaatgaa-gaggcagttatttgaatgtttggagaaTA-------ATTACATAGGAAG--AAAAAATGTTGAGAAAGCCAAAAGAGCATTGATGTGGTTGTATTACATCAGTTTGGTATGATTATAGAAATAAAAGTTTAATA---gaggaacttgatagaaaatgaagctgaagaaacacatatagattgagtcctcaaaggcctcatgtgaa-tcatggtaagaattttaaattgtatttaatatttgaggtgttagagtattgagacagaatg--ac-------aaatatataaa---ttgtttt---aag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24848560 402 -  38779656 -atatagtaataagtactataaagaaatcagaccagggttatgacataaagaatgatcaagttctattatatttta-----tatggtagttaggggaggtctttttgaatgattcatatttagacagagacctgaataagtaga-gacatagtcatgtgaaggtttggggaagaatattgcattaagtaggaag--aaaa-----------------------attgATATAGTTGTATTACATCAGTT-AATATAGTTGTAGAAATAAAAATTCAATTATGGAAGAAATTAATAGAAAATGAAACTGGAGAAAAAGGTAGAGACTGGGTCTTAAAGAG--TACTGTAAA-TAATGGAAAAGATTTTAAATTGGATTTGGTATGTAAAATTTCAT-GTATTAAGACAGAGTT--A---------AAAAAATACATATATGTTTATAAAAA
i otoGar3.GL873528          C 0 I 2
e micMur3.chr31              23675589 397 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=68653.000000
s hg38.chr21_GL383579v2_alt     86340 6 +    201197 aatttt
s panTro5.chr21               8704699 6 +  33445071 aatttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243916 6 +  46275980 aatttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226515 6 -  13858734 aatttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9255412 6 +  32716333 aatttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663062 6 - 185818997 aatttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167299213 6 - 192294377 aatttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4923099 6 -  30496662 aatttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13447953 6 +  21915920 aatttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19949413 6 -  90373283 aatttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3452923 6 +   7543664 aatttt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224071 6 -  13750039 aatttt
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8677133 6 +  13128814 aatttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13905441 6 -  14377064 aatttt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9137292 6 -   9889416 aatttt
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23675986 6 +  47401472 aattct
i micMur3.chr31             I 397 C 0
s otoGar3.GL873528           24848964 6 -  38779656 AACTCT
i otoGar3.GL873528          I 2 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18025652 718 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=3091858.000000
s hg38.chr21_GL383579v2_alt     86346 311 +    201197 cactgctatgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaatcttttgcCATGGAATGC-----ATTACATTTGTTTACGGGTGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCA---AGCTGATAAGAACATTTTCATTAAAAATAG--AAAGAAAAATATGGT-CTCTCTCCACACTTAATGACTTCCCTTTATT--TGAAAAAATACAGCATAAAAGTCTTTGGGCATAGTGCTATAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
s panTro5.chr21               8704705 311 +  33445071 cactgctatgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaatcttttgcCATGGAATGC-----ATTACATTTGTTTATGGGTGGATAAGAAAGTAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCA---AGCTGATAAGAACATTTTCATTAAAAATAG--AAAGAAAAATATGGT-CTCTCTCCACACTTAATGACTTCCCTGTGTT--TGAAAAAATACAGCATAAAAGTCTTTGGGCATAGTGCTATAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22243922 311 +  46275980 cactgctatgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaatcttttgcCATGGAATGC-----ATTACATTTGTTTATGGGTGGATAAGAAAGTAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCA---AGCTGATAAGAACATTTTCATTAAAAATAG--AAAGAAAAATATGGT-CTCTCTCCACACTTAATGACTTCCCTTTGTT--TGAAAAAATACAGCATAAAAGTCTTTGGGCATAGTGCTATAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226521 311 -  13858734 cactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaatcttttgcCATGGAATGC-----ATTACATTTGTTTACGGGGGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCA---AGCTGATAAGAACATTTTCATTAAAAATAG--AAAGAAAAATATGGT-CTCTCTCCACACTTAATGACTTCCGTTTGTT--TGAAAAAATACAGCATAAAAGTCACTGGGCATAGTGCTATAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9255418 310 +  32716333 cactgctatgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaatcttttgcCATGGAATGC-----ATTACATTTGTTTATGGGTGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCA---AGCAGATAATTACATTTTCATTAAAAATAG--AAAGAAAAATATGGT-CTCTCTCCACACTTAACGACTTCCCTTTGTT--TGAAAAAATACAGCATAAAAGTCATTGGGCATAGTGCTATAAAATGAATAATTATGGATAAAAGATCCAAGAATTA-GGACATATTTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663068 309 - 185818997 tactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactctgaagcttttgcCATGGAATGC-----ATTAAATTTGTTTGCTGGTGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTTTCATTAAAAATAG--AAGGAAAAATATGGT-CTCCCTCCACACTTAATGACTTCCCTTTG----AAAAAAAATACAGCATAAAAGTCATTAGGCGTAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167299219 309 - 192294377 cactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactctgaagcttttgcCATGGAATGC-----ATTAAATTTGTTTGCTGGTGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTTTCATTAAAAATAG--AAGGAAAAATATGGT-CTCCCTCCACACTTAATGACTTCCCTTTG----AAAAAAAATACAGCATAAAAGTCATTAGGCGTAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4923105 309 -  30496662 cactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactctgaagcttttgcCATGGAATGC-----ATTAAATTTGTTTGCTGGTGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTTTCATTAAAAATAG--AAGGAAAAATATGGT-CTCCCTCCACACTTAATGACTTCCCTTTG----AAAAAAAATACAGCATAAAAGTCATTAGGCGTAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13447959 309 +  21915920 cactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaagcttttgcCATGGAATGC-----ATTAAATTTGTTTGCTGGTGGATGAGAAAATAGA--CACGTTTTCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTTTCATTAAAAATAG--AAGGAAAAATATGGT-CTCTCTCCACACTTAATGACTTCCCTTTG----AAAAAAAATACAGCATAAAAGTCATTAGGCATAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19949419 308 -  90373283 cactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaagcttttgcCATGGAATGC-----ATTAAATTTGTTTACTGGTGGATGAGAAAATAGA--CACATTTGCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTTTCATTAAAAATAG--AAGGAAAAATATGGT-CTCTCTCCACACTTAAGGACTTCTCTTTG-----AAAAAAATACCGCATAAAAGTCATTAGGCATAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3452929 309 +   7543664 cactgctgtgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaagcttttgcCATGGAATGC-----ATTAAATTTGTTTGCTGGTGGATGAGAAAATAGA--CACGTTTTCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTTTCATTAAAAATAG--AAGGAAAAATATGGT-CTCTCTCCACACTTAATGACTTCCCTTTG----AAAAAAAATACAGCATAAAAGTCATTAGGCATAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTATGGACATATTTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224077 307 -  13750039 cactgctatgtggagaatgtagagaaagaagagtagaatcatgaagaccactttgaagcttttgcGATGGAATGC-----ATTAAATTTGTTTACTGGTGGATGAGAAAATAGA--CACATTTTCCCCCAAAATAAGTCACTTCACTATCATCG---AACTGATAATAACATTCTCATTAAAAATAG--AAGGAAAAATAGGGT-CTCTCTCTACACTTAATGACTTCCCTTTG-----AAAAAAATACAGCAT-AAAGTCATTAGGCATAGTGTTATAAAATGAATGATTATGGATAAAAGATTCAAGAATTACGGACATATTTC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8677139 308 +  13128814 cactgctatgtggagaatgtagagaaagaagagtagaatcgtgaagatcagtttgaagcctTGGCTATGAAATGT-----ATTAAATTTGTTTTCTGTTGGATGAAAAAATTCA--CACATTATTCCACAAAATAAGTCATTTCACTATCATC----ATCtaataataatattttcataaaaaata------gaaaaatatGCT-CTCTCTCCACACTTATTGACTTCCCTTTGTTTGGAAAAAAATACAGCATAAAAGTCATTGGGCATAGTGTTATAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATCTTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13905447 304 -  14377064 cactgctatgtggagaatgtagagaaagaagagtagaattatgaagatcagtttgaagcctttgcCACGAAATGT-----ATTAAATTTGTTTCCTATTGGATGAGAAAATTCA--CACATTATTCCACAAAATAAGTCATTTCACTATCATC----ATC---TGATAATATTTTCAT-AAAAATA------GAAAAATATGCT-CTCTCTCCACACTTAGTGACTTCCCTTTGTTTGGAAAAAAATACAGCATAAAAGTCATTGGGCATAGTGTTATAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATCTTTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9137298 308 -   9889416 cactgctatgtggagaatgtagagaaagaagagtagaatcatgaaaatcagtttgaagcctTTGTCACAAAATAT-----ATTCAATTTGCTTCCTGTTGGATGAGGAAATTCA--CACATTATTCCACAAAATAAGTCATTTCACTATCATC----ATCTGATAATAATATTTTCATAAAAAATA------GAAAAATATGTT-CTCTCTCCACACTTACTGACTTACCTTTGTTTGGAAAAAAATACAGCATAAAAGTCATTGGGGGCAGTGTTACAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATCTTTC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23675992 307 +  47401472 cactgctatgtagagattgtagagaaagaagagtagaatcatgaagacctttatgaagctgttgcagtGGGATGC-----ATAGAATTAGCTAATTGATGGATGAGAAAATATA--CACATTTTTCTCCAAAG-AAGTCACTTCCCTTGCAAGAGTTAGCTGATAACAAAATTTTC---AAAAATGGA-AAAAAAAAATATG---CTCTCTTCAGACTTTATGACTTTCCTTATT---TGAAGAAATGTA-GCTGAAAATCACTGGCCATAGTGTTTTAAAATGAATAATTATGGATAAAAGATTCAAGAATTATGGACATCTTTC
i micMur3.chr31             C 0 I 164
s otoGar3.GL873528           24848970 308 -  38779656 CCCTGCTATGTAGAAACTGTAGGAAAAGAAGAGCAGCATTGTGAAGACCAGTATGAAGATTTCGGAGTGGAATGC-----ATGGAATTAGTT-TTTGGTGGATGAGAAAATATAACCACTTTTTTCTCCAAAG-AAGTCCCTTCACTTGCAAGGGTTAGCTGACAATAATATTTTC---AAAAATATACAAACAAAAATATG---ATCTCTCCAGACTTAATGACATTCTTTATT---TGAAGAAATATAGGCCGGATATAATGAGGCAGAGTGTTTTAAAATGAATAAGTATAG--AAAAGGTTCACGAATGACAGTCATCTTTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18026370 299 +  39895921 CATAACTATTTGGAGAATGTAAAAAATGAAGACTGGAATCATAAAGGCCTATTTGAATTTGCTACAATGGAATGTACTAGATTGAGTTAGTTTATTGATAGATGTTAAAATATA--CACAGTTT-CCCCATGGGAAGTCACTTTACTTACA------AACCCCAATCTATAATTTT--------TAA--AAAGAGAGATAAGATGCTTTCTCTAGAATTAATTATTTTGCTTTATTTGGAAAAACAAAAAGC-TGAAAAACATCGAGCACAGCATTCT-AAATAAA-----ATGGATGAAGAATTCAAAAA-GATGGACATTTTTT
i canFam3.chr31             I 718 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=1344852.000000
s hg38.chr21_GL383579v2_alt     86657 151 +    201197 TATCCCAAAAGATAAAGGTTTTGCTAAGTTGATGGCACTACCGGCTATTA-CCCTTTGCTCTTTCCTT-ATCTATACACTTTCAAGTG-TACCCTTACAGTGCGGTCTATAACGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCTCAGT
s panTro5.chr21               8705016 151 +  33445071 TATCCCAAAAGATAAAGGTTTTGCTAAGCTGATGGCACTACCGGCTATCA-CCCTTTGCTCTTTCCTT-ATGTATACACTTTCAAGTG-TAACCTTACAGTGCGGTCTATAACGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCTCAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244233 151 +  46275980 TATCCCAAAAGATAAAGGTTTTGCTAAGCTGATGGCACTACCGGCTATCA-CCCTTTGCTCTTTCCTT-ATGTATACACTTTCAAGTG-TAACCTTACAGTGCGGTCTATAACGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCCCAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226832 151 -  13858734 TATCCCAAAAGATAAAGGTATTGCTAAGTTGATGGCACTACTGGCTATTA-CCCTTTGCTCTTTCCTT-ATCTACACACTTTCAAGTG-TAACCTTACAGTGCGGTCTATAACGGGCAAGGCTTTCTGCACTGCCCCTTAATTCTGAGCTCAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9255728 152 +  32716333 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGATGGCACTACCAGCTATTA-CCCTTTGCTCTTTCCTCAATCTATACACTTTCACGTG-TAACCTTACAGCGTGGTCTATAATGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCTCAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663377 148 - 185818997 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACGGCGCTACCAGCTATGA-TGCTTTGCTCTTTCCTG----TACACACTTTCACGTG-TAACCTTACAGTGTGGTCTATAATGGGCAAGGCTTTCTACACTGCCCCTTGATTCTAAGCTCAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167299528 148 - 192294377 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACGGCGCTACCAGCTATGA-TGCTTTGCTCTTTCCTG----TACACACTTTCACGTG-TAACCTTACAGTGTGGTCTATAATGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTAAGCTCAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4923414 148 -  30496662 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACGGCGCTACCAGCCATGA-TGCTTTGCTCTTTCCTG----TACACACTTTCACGTG-TAACCTTACAGTGTGGTCTATAATGGGCAAGGCTTTCTACACTGCCCCTTGATTCTAAGCTCAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448268 148 +  21915920 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACGGCGCTACCAGCTATGA-CCCTTTGCTCTTTCCTG----TACACACTTTCACGTG-TAACCTTACAGTGTGGTCTATAATGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCTCAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19949727 147 -  90373283 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACGGCGCTACCAG-TATGA-CCCTTTGCTCTTTCCTG----TCCACACTTTCACGTG-TAACCTTACAGTGTAGTCTATAATGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCTCAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453238 148 +   7543664 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACGGCGCTACCAGCTATGA-TGCTTTGCTCTTTCCTG----TACACACTTTCACGTG-TAACCTTACAGTGTGGTCTATAATGGGCAAGGCTTTCTACACTGCCCCTTGATTCTAAGCTCAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224384 149 -  13750039 TATCCCAAAAGATAAAGGGTTTGCTAAGTTGACAGCGCTACCAGCTATGA-CCCTTTGCTGTTTCCTG----TACATACTTTCACATGTTAACCTTACAGTGTGGTCTATAATGGGCAAGGCTTTCTGCACTGCCCCTTGATTCTGAGCTCAGT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8677447 152 +  13128814 AATTCCAAAAGATAAAGCGTTTGCTAAGTTGATGGCACTACTGGCTATTA-CCCTTTGCTCTTTCCTGTATGTGTACACTTTCACAGG-TAACTTTACAGTGTGGTCTATAATGGGCAAGACTTTCTGTACTGCCCCTTGATTCTGAGCTCAGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13905751 152 -  14377064 AATCCCAAAAGATAAAGCACTTGCTAAGTTGATGGCACTACTGGCTATTA-CCCTTTGCTCTTTCCTGTATGTGTACACTTGCACATG-TAACTTTACAATATGGTCTATAATGGGCAAGACATTCTGCACTGACCCTTGATTCTGAGCTCAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9137606 152 -   9889416 AATCCCAAAAGATAAAACCTTTGCTAAGTTGATGGCACTGCTGGCTATTA-CCCTTTGCTCTTTCCTGTGTGTGTACACTTTCACACA-TAAGTTTACAGTGTGGTCTATAATGGGTAAGACTTTCTGCATTGCCCCTTGATTCTGAGCTCAGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24849278 151 -  38779656 CAATCCCAAAGACTGAAGATTTGTTAAACTGATTATACTACTGGCGATAATCCCCTCACCCATTCCTGCATCTGTACTCTTT-GGGTA-TTAACTTACAGCACAGTCTATGATGGAC-AGGCTTTCTGCACTGACTCTGGACTTTGAAGGCAGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18026669 149 +  39895921 AATCTCAAAA-CCAAAATATTTGCTAAGTGCATTA-AATACGGGATCTAA-TCCTTTGGCCTTCCCCGTATCTATACTTTGTAGTGTA-TGACCTTACATT-CACTCTGCACTGGGCAGTGTCTTCTGCACTACCTCTAGATCCCAGGTCCAGT
i canFam3.chr31             C 0 I 8
e micMur3.chr31              23676299 164 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=116983.000000
s hg38.chr21_GL383579v2_alt     86808 12 +    201197 CACTTGATTAA-C
s panTro5.chr21               8705167 12 +  33445071 CACTTGATTAA-C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244384 12 +  46275980 CACTTGATTAA-C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226983 12 -  13858734 CACTTGATTAA-C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9255880 12 +  32716333 CACTTGATTAA-C
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663525 12 - 185818997 CACTTGATTAA-C
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167299676 12 - 192294377 CACTTGATTAA-C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4923562 12 -  30496662 CACTTGATTAA-C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448416 12 +  21915920 CACTTGATTAA-C
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19949874 12 -  90373283 CACttgattaa-c
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453386 12 +   7543664 CACTTGATTAA-C
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224533 13 -  13750039 CACTTGATTAAtt
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8677599 12 +  13128814 CACTTGATTAA-C
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13905903 12 -  14377064 CACTTGATTAA-C
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9137758 12 -   9889416 CACTTGATTAA-C
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24849429 12 -  38779656 CACTTATTTCA-T
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23676299 164 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18026818  8 +  39895921 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=3428554.000000
s hg38.chr21_GL383579v2_alt     86820 418 +    201197 -----ttttttttcttataaatgt-aagggtataagtgcagttcaattacatggatatattgcatagtggtgaagtctgggcttttagtgtaaccatcacccaaataatgtgcatagtacccattaagtaattttttctccctcacacccctccaacgc-tgtcaacattctgaatctccggtgtctattattccacatgctatgaccatgcgtacatattacttaactcccgcttataaatgagaacatacagtatttggctttgtgtttctgagttgtttctctaagacagtggtcatcaattccatccacgttactacaaaagacataattttataatttttatgggtaaatcgtactccatctatgttgctgcaaaagacatta---------ttttatgggtaaagagtatttcattgt-----tatatcacat
s panTro5.chr21               8705179 419 +  33445071 -----ttttttttcgtataaatgt-aagggtataagtgcagtttaattacatggatatattgcatggtggtgaagtctgggcttttagtgtaaccatcacccaaataatgtacatagtacccattaagtaattttttcttcctcacacccctccaacacttgtcaacattctgaatctccggtgtctactattccacatgctatgaccatgcgtacatattacttaactcccgcttataaatgagaacatacagtatttggctttgtgtttctgagttgtttctctaagatagtggtcatcaattccatccacgttactacaaaagatataattttataatttttatgggtaaatcgtactccatgTatgttgctgcaaaagacatga---------ttttatgggtaaagagtatttcattgt-----tatatcacat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244396 419 +  46275980 -----ttttttttcgtataaatgt-aagggtataagtgcagtttaattacatggatatattgcatagtggtgaagtctgggcttttagtgtaaccatcacccaaataatgtacatagtacccattaagtaattttttcttcctcacacccctccaacacttgtcaacattctgaatctccggtgtctactattccacatgctatgaccatgcgtacatattacttaactcccgcttataaatgagaacatacagtatttggccttgtgtttctgagttgtttctctaagatagtggtcatcaattccatccacgttactacaaaagacataattttataatttttatgggtaaatcgtactccatgTatgttgctgcaaaagacatga---------ttttatgggtaaagagtatttcattgt-----tatatcacat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8226995 418 -  13858734 -----ttttttttcgtataaatgt-aagggtataagtgcagtttaattacatggatatattgcatagtggtgaagtctgggcttttagtgtaaccatcacccaaataatgtacatagtacccattaagtaattttttctccctgacacctctccaacac-tgtcaacattctgaatctccggtgtctattatttcacatgctatgaccatgcgtacatattacttaactcccgcttataaatgagaacatacagtatttggctttgtgtttctgagttgtttctctaagacagtggtcatcaattccacccacgttactacaaaagacataattttataatttttatgggtaaatcgtactccatctatattgctgcaaaagacatga---------ttttatgggtaaagagtatttcattgt-----tatatcacat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9255892 423 +  32716333 -----tttctttttgtataaatct-aagggtataagtgcagtttaattacatggatatattgcatagtggtgaagtctgagcttttagtgtaactatcactcaaataatgtacatagtatccattaagtaattttttctccctcacaccccttcaacac-tgtcaacattctgaatctccagtgtctattattccacatgctatgaccatgtgtacatattatttaactcccgcttataaatgagaacatacagtatttggctttgtgtttctcagttgtttctctaagatagtggtcaccaattccatccatgttactacaaaagacataattttataatttttatgggtaaatcgtactccatCTGtgttgctgcaaaagacatga---------ttttatgggtaaagagtattacattgtgtatctgtatcacat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663537 427 - 185818997 -----atttt----gtacaaatgttaagggtataagtgca-tttaattacacggatatattgcatagtggtgaagtccgggcttttaatgtaaccatcacccaaataatgtacatagtacccattaagaaattttttctcccttacacccctccaacac-t-tcaatattctgaatctccaatgtctattattccacatgctatgaccatgtgtacatattatttaactcccacttataaatgagaacatacagtatttggctttgtgtttctgagttgtttctttaagatggtggtcaccagttccatccatgttacaacaaaagacataattttataatttttatgggtaaatcgtacgccatccatgttgctgcaaaagacataattttatgatttttatgggtaaatagtatttcattgtgcatctgtatcacat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167299688 427 - 192294377 -----atttt----gtacaaatgttaagggtataagtgca-tttaattacacggatatattgcatagtggtgaagtccgggcttttaatgtaaccatcacccaaataatgtacatagtacccattaagaaattttttctcccttacacccctccaacac-t-tcaatattctgaatctccaatgtctattattccacatgctatgaccatgtgtacatattatttaactcccacttataaatgagaacatacagtatttggctttgtgtttctgagttgtttctttaagatggtggtcaccagttccatccatgttacaacaaaagacataattttataatttttatgggtaaatcgtacgccatccatgttgctgcaaaagacataattttatgatttttatgggtaaatagtatttcattgtgcatctgtatcacat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4923574 427 -  30496662 -----atttt----gtacaaatgttaagggtataagtgca-tttaattacacggatatattgcatagtggtgaagtccgggcttttaatgtaaccatcacccaaataatgtacatagtacccattaagaaattttttctcccttacacccctccaacac-t-tcaatattctgaatctccaatgtctattattccacatgctatgaccatgtgtacatattatttaactcccacttataaatgagaacatacagtatttggctttgtgtttctgagttgtttctttaagatggtggtcaccagttccatccatgttacaacaaaagacataattttataatttttatgggtaaattgtacgccatccatgttgctgcaaaagacataattttatgatttttatgggtaaatagtatttcattgtgcatctgtatcacat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448428 424 +  21915920 -----ATttt----gtacaaatgtcaagggtataagtgca-tttaattacacggatatattgcatagtggtgaagtccgggcttttcatgtaaccatcacccaaataatgtacatagtacccattaagaaattttttctccctcacacccctccaacac-tgtcaacattctgaatctccagtgtctattattccacatgctatgaccatgtgtacatattatttaactcccacttataaatgagaacgtacagtatttggctttgtgtttctgagttgtttctttaagatggtggtcaccagttccatccatgttacaacaaaagacataattttataatttttatgggtaaatcgaac----tccatgttgctgcaaaagacataattttatgatttttatgggtaaatagtatttctttgtgcatctgtatcacat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19949886 428 -  90373283 -----atctt----gtacaaatgttaagggtataagtgca-tttaattacatggatatattgcacagtggtgaagtctgggcttttaatgtaaccatcacccaaataatgtacatagtacccattaagaaattttttctccgtcacacccctccaacat-tgtcaacattctgaatctccaatgtctattattccacatgctatgaccatgtgtacatattatttaactcccacttataaatgagaatatacagtatttggctttgtgtgtctgagttgtttctttaagacggtggtcaccagttccatccatgttacaacaaaagacctaattttataatttttatgagtaaatcgtactccatccatgttgctgcaaaagacataattttatgatttttatgggtaaatagtatttcattgtgcatctatatcacat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453398 428 +   7543664 -----atttt----gtacaaatgttaagggtataagtgca-tttaattacacggatatattgcatagtggtgaagtccgggcttttaatgtaaccatcacccaaataatgtacatagtacccattaagaaattttttctccctcacacccctccaacac-tgtcaacattctgaatctccagtgtctattattccacatgctatgaccatgtgtatgtattatttaactcccacttataaatgagaacgtacagtatttggctttgtgtttctgagttgtttctttaagacggtggtcaccagttccatccatgttacaacaaaagacataattttataatttttatgagtaaatcgtactccatccatgttgctgcaaaagacataattttatgatttttatgggtaaatagtatttcattgtgcatctatatcacat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224546 428 -  13750039 -----ttttt----gtacaaatgttaagggtataagtgca-tttaattacacggatatattgcatagtggtgaagtccgggcttttaatgtaaccatcacccaaataatgtgcatagtacccattaagaaattttttctccctcacacccctccaacac-tatcaacattctgaatctccaatgtctattattccacatgctatgaccatgtgtacatattatttaactcccacttataaatgagaacatacagtatttgactttgtgtttctgagttatttctttaagatggtggtcaccagttccatccatgttacaacaaaagacataattttataatttttatgggtaaatcgtactccatccatgttgctgcaaaagatataattttatgatttttatgggtaaatagtatttcattgtgcatctatatcacat
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8677611 432 +  13128814 -tttttttttttttgcataaatat-aagggtata---gcagtttagttacctggatatattgcacagtggtgaaacctgggattttagtgtaactatcacccaaataatgtacatagtatccaacaagtaatttttcctccctcacatctctccaactc-cctcaacattctgaatctccaatgtctattattccacatgttatgacaatgtgtacatattattgaactcccacttataaatgagaacatatggtatttggttttgtgtttcggagttgtttctctaaaatagtagtcaccaattcaatccatgtaactagaaaatatattattttataa-ttttatgggtaaattatatttcatccatgttgctgcaaaatacatgattttattatttttatgggtaaatagtatttcattgtgtatatatgtcacat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13905915 432 -  14377064 -----tttttttttgcataaatat-aagggcataagtgcagtttagttacctggatatattgcatagtggtaaagcctgggcttttagtgtaactgtcacccaaataatgtacatagtatccaacaagtagtttttcctccctcacatctctccaaccc-cctcaacattccaagtctccaatgtctattattccacatgttatgaccatgtgtacatattattgaactctcacttataaatgagaacatatggtatttggctttgtgtttctgagttgtttctctaagatagtagtcaccaattccatccatgtaactagaaaagatattattttatgatttttatgggtaaatcatatttcatccatgttgctacaaaagacatgattttattatttttatgggtaaataatatttcattgtgtatatatgtcacat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9137770 435 -   9889416 TTTttttttttttttcataaatat-aagggtatacgtgcagtttagttacctggatatattgcacagtggtgaagcctgggcttttagtgtaactatcacccaaataatgtacttagtatccaacaagtaatttttcctccctcacatctctccaaccc-cctcaacattctgagtctccaatgtctattattc--catgttatgaccatgtgtacatattattgaactcccacttagaaatgagaacatacggtatttggctttgtgtttctgagttgtttctctaagatagtagtcaccaattccatccatgtaactagaaaagatattactttatgatttttatgggtaaatcatatttcatccatgttgctgcaaaatacatgatttttatatttttatgggtaaatagtatttcattgtgtatatgtgtcacat
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23676299 164 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18026818   8 +  39895921 I
e calJac3.chr21              26485373  49 +  50472720 I
e otoGar3.GL873528           24849441   0 -  38779656 C

a score=51498.000000
s hg38.chr21_GL383579v2_alt     87238 5 +    201197 tCACC
s panTro5.chr21               8705598 5 +  33445071 tCACC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244815 5 +  46275980 tCACC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227413 5 -  13858734 tCACC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256315 5 +  32716333 tCACC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663964 5 - 185818997 tCACC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300115 5 - 192294377 tCACC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924001 5 -  30496662 tCACC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448852 5 +  21915920 tCACC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950314 5 -  90373283 tCACC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453826 5 +   7543664 tCACC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224974 5 -  13750039 tCACC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678043 5 +  13128814 tcact
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906347 5 -  14377064 tcact
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138205 5 -   9889416 tcact
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18026826 5 +  39895921 TCACT
i canFam3.chr31             I 8 C 0
e micMur3.chr31              23676299 164 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I
e otoGar3.GL873528           24849441 0 -  38779656 C

a score=391134.000000
s hg38.chr21_GL383579v2_alt     87243 35 +    201197 TTGAAATGTTAGCAAGCATGAC---AAAGAGACAAAGA
s panTro5.chr21               8705603 35 +  33445071 TTGAAATGTTAGCAAGCATGAC---AAAGAGACAAGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244820 35 +  46275980 TTGAAATGTTAGCAAGCATGAC---AAAGAGACAAGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227418 35 -  13858734 TTGAAATGTTAGCAAGCATGAC---AAAGAGACAAGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256320 35 +  32716333 TTGAAATGTTAGCAAGCACGAC---ACAGAGACAAGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160663969 35 - 185818997 TTGAAATGTTAGCAAGGATGAC---ATAGAGACAAGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300120 35 - 192294377 TTGAAATGTTAGCAAGGATGAC---ATAGAGACAAGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924006 35 -  30496662 TTGAAATGTTAGCAAGGATGAC---ATAGAGACAAGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448857 35 +  21915920 TTGAAATGTTAGCAAGGATGAC---ATAGAGACAAGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950319 35 -  90373283 TTGAAATGTTAGCAAGGATGAC---ATAGAGACAAGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453831 35 +   7543664 TTGAAATGTTAGCAAGGATGAC---ATAGAGACAAGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5224979 35 -  13750039 TTGAAATGTTAGCAAGGATGCC---ATAGAGACAAGGA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678048 35 +  13128814 ttGAAATGTTAGCAAGTATGAT---ATAGAGACAAGGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906352 35 -  14377064 ttGAAATGTTAGCAAGTATGAT---ATAGAGACAAGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138210 35 -   9889416 ttGAAATGTTAGCAAGTATGAT---ATCAAGACAAGGA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23676463 35 +  47401472 TTGAAATGTTAACAATCATGAC---AAAGAGACAGAGA
i micMur3.chr31             I 164 I 42
s otoGar3.GL873528           24849441 35 -  38779656 TTGCAATGTTAACAAGCTTGGC---AAGGAGATGAGAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18026831 38 +  39895921 TTGAAATGTTAAGAAAGAAGACACAACAGAGATATGAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=259815.000000
s hg38.chr21_GL383579v2_alt     87278 27 +    201197 AGAATACTTTAGTATTTCAGGTACTGC
s panTro5.chr21               8705638 27 +  33445071 AGAATACTTCAGTATTTCAGGTACTGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244855 27 +  46275980 AGAATACTTCAGTATTTCAGGTACTGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227453 27 -  13858734 AGAATACTTTAGTATTTCAGGTACTGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256355 27 +  32716333 AGAATAGTTTAGTATTTCAGGTACTGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664004 27 - 185818997 AGAATACTTGAGTATTTCAGGTACTGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300155 27 - 192294377 AGAATACTTGAGTATTTCAGGTACTGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924041 27 -  30496662 AGAATACTTGAGTATTTCAGGTACTGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448892 27 +  21915920 AGAATACTTGAGTATTTCAGGTCCTGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950354 27 -  90373283 AGAATACTTGAGTATTTCAGGTACTGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453866 27 +   7543664 AGAATACTTGAGTATTTCAGCTACTGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225014 27 -  13750039 AGAATACTTGAGTATTTCAGGTACTGC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678083 27 +  13128814 AAAATACTTGAGAATTTCAGGTACTAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906387 27 -  14377064 AAAATACTTGAGAATTTCAGGTACTAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138245 27 -   9889416 AGAAAATTTGAGAATTTTAGGTACTAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24849476 27 -  38779656 GGAACACTTGAATGTTTCTGCTCCTGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18026869 27 +  39895921 ATAGCACCTGAGTATTTCTGTTCCTGC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23676498 42 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=1517594.000000
s hg38.chr21_GL383579v2_alt     87305 144 +    201197 ACTTTTCCTCTGCTATCAACATGAGGAGGACATGCCTAGGCTAGTCCAGGGTAAAAGTATTAGAAATATATGGGCCAGAGTAATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAACACCCA
s panTro5.chr21               8705665 143 +  33445071 ACTTTTCCTCTGCTATCAACATGAGGAGGACATGCCTAGGCTAGTCCAGGGT-AAAGTATTAGAAATATATGGGCCAGAGTAATGAGCCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAACACCCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22244882 143 +  46275980 ACTTTTCCTCTGCTATCAACATGAGGAGGACATGCCTAGGCTAGTCCAGGGT-AAAGTATTAGAAATATATGGGTCAGAGTAATGAGCCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAACACCCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227480 142 -  13858734 ACTTTTCCTCTGCTATCAACACGAGGAGGACATGCCTAGGCTAG-CCAGGGT-AAAGTATTAGAAATATATGGGCCAGAGTGATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAACACCCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256382 143 +  32716333 ACTTTTCCTCTGCTATCAACATGACGAGGACGTGCCTAGGCTAGTCCAAGGT-AAAGTATTAGAAATACATGGGCCAGAGTACTGAGGCATTAGATTTCTTCACCAGAACTATCATAGATCAACACAAATCTAACCAACACCCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664031 142 - 185818997 ACTTTTCTTCTGCTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGTATTAGAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAATACCCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300182 142 - 192294377 ACTTTTCTTCCGCTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGTATTAGAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAATACCCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924068 142 -  30496662 ACTTTTCTTCCGCTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGTATTAGAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAATACCCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13448919 142 +  21915920 ACTTTTCCTCCGCTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGTATTAGAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTATCCTAGATCAACACAAATCTAACCAATACCCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950381 142 -  90373283 ACTTTTCCTCCGCTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGAATTAGAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACTAAGACCCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3453893 142 +   7543664 ACTTTTCCTCCGCTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGAATTAGAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTATCATAGATCAACACAAATCTAACCAATACCCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225041 142 -  13750039 ACTTTTCCTCCACTATCAACATGAGGAGGACATG-CTAGGCTAGTCCAAGGT-AAAGTATTAAAAATATATGGGCCAGAGTCATGAGGCATTAGATTTCTTCACCAAAACTCTCATAGATCAACACAAATCTAACCAACACCCA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678110 143 +  13128814 ACTTTTCCTCTGCTATTAACATGAGGAGGACACACCTGGGCTAGTCCAATGC-AAAGTATTAGAAATAAATGGGCCAGAATCATTAGGCATTAGATGTCTTAGCCAAAACTATCAGAGATTAACAGAAACCTAACCAACATCCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906414 143 -  14377064 ACTTTTCCTATGCTATTAACATAAGGAGGACACGCCTAGGCTGGTCTAATGT-AAAATATTAGAAATATATGGGCCAGAGTCATTAGGCATTATATGTCTTAGCCAAAACTATCAGAGATTAACACAAATCTAACCAACATCCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138272 143 -   9889416 ACTTTCCCTCTGCTATTAACATGAGGAGGACATGCCTAGGCTTGTCCAATGT-AAAGTATTAGAAATATATGGGCCAGAGTCATTAGGTATTAGATGTCTTAGCCAAAACTATCAGAGATTAACACAAACCTAACCAATATCCA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23676540 143 +  47401472 ACTTTGCCTGTGCTATCAACATGAGGAAGCCATGCCTAGGTTAGTCCAAGAT-GAAGAGATAGAAATATATGGACCACAGTCACAAAGCCCTAGATGTCTTAGCCAAAGCCATCACAGATCAACAAAAATCTAACCAACATCCA
i micMur3.chr31             I 42 I 189
s otoGar3.GL873528           24849503 143 -  38779656 CCTTGTCCTCTTCTGTCAACAGGAGCAGGATCTGCCTAAGTTAGTCCACGAT-GGAGTGTTAGAAATACACAGACCACCGTTACAAGGCTCCAGATGTTTTAGCCAAAGCCACCGCAAATCAACAAAAATTTAACAGATGCCAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18026896 143 +  39895921 TTTTGCCCTCCACTATCAACATCAGCAGGATAAGTCCAGGCTAGTTCCAAAT-TAAGTCTGATAAATAAATGGACAAGACTCACAAGACTCCAGGTATCTTAGCTGAAATCAGCATAGCTCAACAGAAGTACTATCAACATCCA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=1491702.000000
s hg38.chr21_GL383579v2_alt     87449 162 +    201197 -ACAAGCAGATACTCATAGCCAAC--CTAGCTTATATCAGGTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGCGA----TT----GTAATGCAACATAATGGTCACAATATGTAACTGATACA-ATAGCGCAGAGAAGTGA----ATAAAATAAC--TATATAA
s panTro5.chr21               8705808 162 +  33445071 -ACAAGCAGATACTCATAGCCAAC--CTAGCTTGTATCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGCGA----TT----GTAATGCAACATAATGGTCACAATATGTAACTGATACA-ATAGTGCGGAGACGTGA----ATAAAATAAC--TATATAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245025 158 +  46275980 -ACAAGCAGATACTCATAGCCAAC--CTAGCTTGTATCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGCGA----TT----GTAATGCAACATAATGGTCACAATATGTAACTGATACA-ATAGTGCGGAGACGTGA----ATAAAATAAC------TAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227622 162 -  13858734 -ACAAGCAGATACTCATAGCCAAC--CTAGCTTGTATCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGCGA----TT----GTAATGCAACATAATGGTCACAGTATGTAACTGATACA-ATAGTGCAGAGACGTGA----AGAAAATAAC--TATATAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256525 162 +  32716333 -ACAAGCAGATCCTCATAGCCAAC--CTAGCTTATATCAGCTAAAGTACTCAAATTCCTGAGCTAATA-------------CTCATGTCAATCAGGTTGTGCGA----TT----GTAATGCAACATAATGGTCACAATATGTAACTGATACA-ATAGTGCAGAGACGTAA----ATAAAATAAC--TATATAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664173 164 - 185818997 -ACAAGCAGATCCTCATAGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------GTAATGTCAACCAGGTTGTGTGA----TT----GTAATGCAACATAATGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACATAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300324 164 - 192294377 -ACAAGCAGATCCTCATAGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAACCAGGTTGTGTGA----TT----GTAATGCAACATAATGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACATAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924210 164 -  30496662 -ACAAGCAGATCCTCATAGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAACTAATA-------------CTAATGTCAACCAGGTTGTGTGA----TT----GTAATGCAACATAATGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACATAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449061 164 +  21915920 -ACAAGCAGATCCTCGTAGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAGTGTCAATCAGGTTGTGTGA----TT----GTAATGCAACATAATGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACCTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950523 164 -  90373283 -ACAAGCAGATCCTCATAGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGTGA----TT----GTAATGCAACATAATGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACATAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454035 162 +   7543664 -ACAAGCAGATCCTCATAGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGTGA----TT----GTAATGCAACATAATGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACAT--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225183 164 -  13750039 -ACAAGCAGATCCTCATGGCCAAC--CTAGCTTGTGTCAGCTAAAGCACTCAAATTCCTGAGCTAATA-------------CTAATGTCAATCAGGTTGTGTGA----TT----GTAATGCAACAAAGTGGTCACAATATGTAACCTATACA-ATAGTGCAGAGACGTGA----ATAAAACAACTTTACATAA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678253 166 +  13128814 -ACAAGCAAATCCTCATAGCCAACTTCTAGCTTATATTAGCTAAAGCACTCAAATTCCTCAGATAATA-------------CTAATGTCAATCAGGTTGTGTGA----TT----GTAAAGCAATATAATTGTCACAATATGTAACTGATACA-ATAATGCAGAAATGTGA----Gtaaaataaatttatataa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906557 166 -  14377064 -AGAAGCAGATCCTCATAGCCAACTTCTAGCTTATATCAGCTAAAGCACTCAAATTCCTCAGATAATA-------------CTAATGTCAATCAGGTTGTGTGA----TT----GTAATGCAATATAATTGTCACAATATGTAACTGATACA-ATAGTTCAGAGATGTGA----GTTAAATAAATTTATATAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138415 166 -   9889416 -ACAAGCAGATCCTCATAGCCAACTTCTAGCTTATATCAGCTAAAGCACTCAAATTCCTCAGATAATA-------------CTAATGTCAATCAGGTTGTGTGA----TT----GTAATGCAACATAATTGTCACAATATGTAACTGATGCA-ATAGTGCAGAGATGTGA----GTAAAATAAATTTATATAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24849646 182 -  38779656 -ACTA-CAGAGCCTCCCAGCCAAC--CCAACTTATATCAGCTGAATTCCTCAATTTCCTGAGCTAATAATTTAT---TGCTTTGTTGCCTCCTAGGTTTTGTGA----TTGATCGTCATGCAACATAATTGTGGCAATATCTAATCCATACAGATGGCAAGGAGATGTGAGTATGTAAAATAATTTTATGTAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027039 160 +  39895921 GATAA-CAAAGCCTCCCCACCAAC----------------ATAAATCATTTAGATTCCTGAGCTAAGGAAACATTCATTCTCTACTGCC--TGGAGTTGTATGATGGTTT----GTTATACAATATTGTGGCAACA-TATATAATTGATACAGATGATAAGGAAACACCA----ATATGAG-----TATATAA
i canFam3.chr31             C 0 I 10
e micMur3.chr31              23676683 189 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=1418838.000000
s hg38.chr21_GL383579v2_alt     87611 131 +    201197 GAAACTTTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTCA---------------------GCATTTGGAAGTCTTCGG-TATTAAAAATATCTTAATCATCATAGGCTTATGGATTAAAATAGCAAAGAGGATTACTTTCCTATT
s panTro5.chr21               8705970 131 +  33445071 GAAACTTTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTCA---------------------GCATTTGGAAGTCTTCGG-TATTAAAAATATCTTAATCATCATAGGCTTATGGATTAAAATAGCAAAGAGGATTACTTTCCTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245183 131 +  46275980 GAAACTTTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTCA---------------------GCATTTGGAAGTCTTCGG-TATTAAAAATATCTTAATCATCATAGGCTTATGGATTAAAATAGCAAAGAGGATTACTTTCCTATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227784 131 -  13858734 GAAACTTTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTCA---------------------GCATTTGGAAGTCTTCGG-TATTAAAAATATCTTAATCACCATAGGCTTATGGATTAAAATAGCAAAGAGGATTACTTTCCTATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256687 129 +  32716333 GAAACTTG--TGAAAGGACATTAATCCGTTTTGAGGCTTG-AGTCTTA---------------------ACATTTGGAAGTCTTCGG-TATTAAAAATATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAGAATTACCTTCCTATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664337 131 - 185818997 GAAACTCTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCGG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAGTATTTTCCTATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300488 131 - 192294377 GAAACTCTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCGG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAGTATTTTCCTATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924374 131 -  30496662 GAAACTCTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCGG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAATATTTTCCTATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449225 131 +  21915920 GAAACTCTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCGG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAGTATTTTCCTATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950687 131 -  90373283 GAAACTCTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCGG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAGTATTTTCCTATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454197 130 +   7543664 -AAACTCTTCTGAAAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCGG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAGTATTTTCCTATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225347 131 -  13750039 GAAATTCTTCTGAGAGGACATTAATCCATTTTGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTCTTCAG-TATTAAAACTATCTTAACCATCATAGGCTTATGGATTAAAATAGCAAAGAAGAGTACTTTCCTATT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678419 129 +  13128814 aaa-CTTTTCTGGAAGAATATTAATCCATTATGAGGCTTG-AGTCTTA---------------------GCATTTGTAAGTTTTTGG-TATTAAAAATATCTTAACCA-TATAGGTTTATGGATTAAATTAGCAAAGAGGATTACTTTCCTCTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906723 124 -  14377064 AAA-CTTTTCTGGAAGGATATTAATCCATTATGAGACTTA-CTTCTTA---------------------GCATTTGGAAGTTTTTGG-TATTACAAA-----TAACCA-CATATGTTTATGGATTAAATTAGCAAAGAGGATTACTTTCCTCTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138581 131 -   9889416 AAATCTTTTCTGGAAGGATATTAATCCATTATGAGGCTTG-AGTCTTA---------------------GCATTTGGAAGTTTTTGGTTATTAAAAATATCTTAACCA-CATAGGTTTATGGATTAAATTAACAAAGAGGATTACTTTCCTCTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23676872 132 +  47401472 GAAACTTTTCTGAAAGGACACTAATCCATTTTGATGCTTGGAATCTTA---------------------GCATATGGAGGTTTTAGG-TATTGAAAATATCTCAACCACCATAAGCTTATGGATTAAAATAGCAAAGATGATTACTTTCCTATT
i micMur3.chr31             I 189 I 590
s otoGar3.GL873528           24849828 131 -  38779656 GAAACTTTTCTGAAAGGACCCTAATCTATCTTGATGCTTACAATCTTA---------------------GCATTTGGGGGTCTTAGG-TATT-AAAATATCTCAACCACTATAAGCTTATGGATCAAAATAGCAAAGATGATTACTTCCCTATT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027209 152 +  39895921 AGAAGTTCTCTGAAATGATAGTAATCCATTTTGAGGCTTGGAATCTTATATTAGGAAATCTTTTTTTTTTTTTTAGGAAGTCTTTGT-TATTAAAAATATTTCAACCCACCTAGGCTTTTGAATTCAAATAGCAAAGAACATTAATTTTTTTT-
i canFam3.chr31             I 10 C 0
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=2564964.000000
s hg38.chr21_GL383579v2_alt     87742 294 +    201197 TCCCATTTGGAACCCTAGAGAAAG----TTTCACAAAATGTGAGAGGTCTAAGTGATGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTCCAAGTTTGTTAACATTTCTCATTCTATACACACCCTACTCTT---CCCCC---TCCATGACTGTCACTACCCTTCTGTTTTGTTTTTACAGGACC-TGGGATGG----AATTCTGAAATTATTGTGAGCCCCACTTCAAATCCACACCCCCTCCA-AAACAATACATGAGAGATACC--------T---------TGTAGTATTGATACAGTGAGTTACCTGAAGGTCTGTAGA--
s panTro5.chr21               8706101 294 +  33445071 TCCCATTTGGAACCGTAGAGAAAG----TTTCACAAAATGGGAGAGGTCTGAGTGATGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTCCAAGTTTGTTAACATTCCTCATTCTATACACACCCTACTCTT---CCCCC---TCCCTGACTGTCACTACCCTTCTGTTTTGTTTTTATAGGACC-TGGGATGG----AATTCTGAAATTATTGTGAGCCCCACTTCAAATCCACACCCCCTCCA-AAACAATACATGAGAGAGACC--------T---------CGTAGTATTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245314 294 +  46275980 TCCCATTTGGAACCCTAGAGAAAG----TTTCACAAAATGGGAGAGGTCTGAGTGATGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTCCAAGTTTGTTAACATTCCTCATTCTATACACACCCTACTCTT---CCCCC---TCCCTGACTGTCACTACCCTTCTGTTTTGTTTTTATAGGACC-TGGGATGG----AATTCTGAAATTATTGTGAGCCCCACTTCAAATCCACACCCCCTCCA-AAACAATACATGAGAGAGACC--------T---------CGTAGTATTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8227915 294 -  13858734 TCCCATTTGGAACCCTAGAGAAAG----TTTCACAAAATGGGAGAGTTCTAAGTGATGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTCCAAGTCTGTTAACATTCCTCATTCTATACACACCCTACTCTT---CCCCC---TCCATGACTGTCACTACCCTTCTGTTTTGTTTTTATAGGACC-TGGGATGG----AATTCTGAAATTATTGTGAGCCCCACTTCAAATCCACACCCCCTCCA-AAACAATACTTGAGAGAGACC--------T---------TGTAGTATTGATGCAGTGAGTTACCTGAAGGTCGGTAGA--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9256816 285 +  32716333 TCCCATTTGAAACCCTAGAGAAAG----TTTCACAAAATGTGAGAGATCTAAATGATGCAAAGTGGTT-GGAAATTGCAGGACACAAA-ATCCTCCAAGTTTGTTAACATTCCTCATTCTATACACACCCTACCCTT---CCCCC---TCCATGACTGTCACTACCCTTCTGTTTTGTTTTTATAGGACC-TGGGATGG----AATTCTGAAATTATTGTGAGCCCCACTTCAAATCTACACCCCCTCCA-AAACAAT---------AGAGC--------T---------TATAGTATTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664468 298 - 185818997 TCCCACTTGGAACCCTAGAAAAAGTCATTTGCACAAAATGGGAGAGGTCTAAGTGACGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACATTCTTCATTCTATACCCACCCTACTCTT---CTGCC---TCCATGACCGTCACTACCCTTCTGTTTTGTTTTTGTAGGACC-TGGGATGG----GATTCTGAAATTACTGTGAGCCCCAATTCAAATCCACACGCCCTCCA-AAAAAATACATGAGAGAGAGC--------T---------TATAGTGTTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300619 298 - 192294377 TCCCACTTGGAACCCTAGAAAAAGTCATTTGCACAAAATGGGAGAGGTCTAAGTGACGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACATTCTTCATTCTATACCCACCCTACTCTT---CTGCC---TCCATGACCGTCACTACCCTTCTGTTTTGTTTTTGTAGGACC-TGGGATGG----GATTCTGAAATTACTGTGAGCCCCAATTCAAATCCACACGCCCTCCA-AAAAAATACATGAGAGAGAGC--------T---------TATAGTGTTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924505 298 -  30496662 TCCCACTTGGAACCCTAGAAAAAGTCATTTGCACAAAATGGGAGAGGTCTAAGTGACGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACAGTCTTCATTCTATACCCACCCTACTCTT---CTGCC---TCCGTGACCGTCACTACCCTTCTGTTTTGTTTTTGTAGGACC-TGGGATGG----GATTCTGAAATTACTGTGAGCCCCAATTCAAATCCACACGCCCTCCA-AAAAAATACATGAGAGAGAGC--------T---------TATAGTGTTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449356 298 +  21915920 TCCCACTTGGAACCCTAGAGAAAGTCAGTTGCACAAAATGGGAGAGGTCTAAGTGATGCAAAGGAGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACATTCTTCATTCTATACCCACCCTACTCTT---CCGCC---TCCGTGACCGTCACTACCCTTCTGTTTTGTTTTTATAGGACC-TGGGATGG----GATTCTGAAATCACTGTGAGCCCCAATTCAAATCCACACTCCCTCTA-AAAAAATACATGAGAGAGAGC--------T---------TATGGTGTTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19950818 298 -  90373283 TCCCACTTGGAACCCTAGAGAAAGTCAGTTGCACAAAATGGGAGAGGTCTAAGTGACTCAAAGGAGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACATTCTTCATTCTATACCCACCCTACTTTT---CTGCC---TCCATGACCGTCACTACCCTTCTGTTTTGTTTTTATAGGAAC-TGGGATGG----GATTCTGAAATTACTGTGAGACCCAATTCAAATTCACACCCCTTCCA-AAAAAATACATGAGAGAGAGC--------T---------TAGAGTATTGATGCAGTGAGTTACCCGAAGGTCTGTAGA--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454327 298 +   7543664 TCCCACTTGGAACCCTAGAGAAAGTCAGTTGCACAAAATGGGAGAGGTCTAAGTGATGCAAAGGAGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACATTCTTCATTCTATACCCACCCTACTCTT---CCGCC---TCCATGACCGTCACTACCCTTCTGTTTTGTTTTTATAGGACC-TGGGATGG----GATTCTGAAATCACTGTGAGCCCCAATTCAAATCCACACTCCCTCTA-AAAAAATACATGAGAGAGAGC--------T---------TATGGTGTTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225478 298 -  13750039 TCCCACTTGCAACCCTAGAGAAAGTCAGTTTCACAAAATGGGAGAGGTCTAAGTGACGCAAAGGGGTT-GGAAATTGCAGGACAGAAA-ATCCTTCAAGTTTGTTAACATTCTTCATTCCATACCCACCCTACTCTT---CCGCC---TCCATGACCGTCACTACCCTTCTGTTTTGTTTTTGTAGGACC-TGGGATGG----GATTCTGAAATTATTGTGAGCCCCAATTCAAATCCACATGCCCTCCA-AAAAAATACATGAGAGAGAGC--------T---------TATAGTGTTGATGCAGTGAGTTACCTGAAGGTCTGTAGA--
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678548 296 +  13128814 TCCCATGTAGAACCCTAGAGAAAGTCAGTTTCATGAAATGGAAGGGGTGTAAGTGATGCAAAGGCGTCAGGAAATTGTAGGACAGAAA-A--CTGTAAGTTTCTTAATATCTCTCATTCTACACACACCCTACACTT---CCCCC---TCTATGACTGTCACTACCCTTCTGTTTGGTCCTTATAGCACC-TGAGATGG----GATTCTGTAATTATCGTGAGCCCCACTTGAAATCCACACCCCACACA-AAAAAATACATGAGAGCTATT--------G---------TATAGTGTTGATGGAGTAAGTTACCCAAAGGTCT-TAGA--
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13906847 296 -  14377064 TCCCACGTAGAACCCTAGAAAAAGTCAGTTTCACAAAATGGAAGGGGTCTAAGTGATGCAAAGGCATCAGGAAATTGTAGGACAGAAA-A--CTGCAAGTTTCTTAACATCTCTCATTCTACACACACCCTACACTT---ACCCC---TCCATGGCTGTCACTACCCTTCTGTTTGGTCCTTATAGCACC-TGGGATAG----GGTTCTGTAATTATTGCGAGCCCCACTTGAAATCCACACCCCACACA-AAAAAATACATGAGAGATACC--------A---------TATAGTGCTGATGCAGTAAGTTACCTGAAGGTCT-TAGA--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9138712 305 -   9889416 TCCCACGTAGAACCCTAGAGAAAGTCAGTTTCACAAAATGGAAGGGATCTAAGTGATGCAAAGGTGTCAGGAAATTGTAGGACAGAAA-A--CTGCAAGTTTCTTAACATCTCTCATTCTACACACACCCTGCACTT---CCCCC---TCCATGACTGTCACTACCCTTCTGTTTGGTCCTTACAGCACC-TGAGATGG----GATTCTGTAATTATTGTGAGCCCCACTTGAAATCGACACCCCACACACAAAAAATACATGAGAGATACATATACCAGA---------TACAGTGTTGATGCAGTAAGTTACCTGAAGGTCT-TAGA--
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24849959 285 -  38779656 ATGCCCTTAGAATTCTA-AAAAAGTCAATCTCACAGAATAAGAGAGCTTTAAGTGGTGCAAAGAGATTAAGAAAGAACAGAACAGAAAGAGCCTCTGAGCTTGTTACCATCCTTCATCCTCCACACACCTTACTCTTATCTTCCA---CCCATCACCATCATCACCATCATTTTTTGCTTTTATGTGACCAGGGGGTGGGGCAGATTCTGAAGTTCTTATAAGTCTCA-----------------------TGAAGGAGCATTAGTGATAGT--------T---------TGTAGTGCTGGCACAGTGAGTTACCTGAAAGTCTATATA--
i otoGar3.GL873528          C 0 I 13
s canFam3.chr31              18027361 278 +  39895921 TCTCCCTTTAAAGTCTGGAGAAAGTCAGTTTTACAAAATG-GAGAACTGTAGGAGATA-AAAGGGGTCAAGAAATAGCAGGACAGAGT-C---------TGTGTTAA-ACTCCCCATGCCTCCTACAGCCTAATCTT---CTCCCCTTTTCATCACACTCAGTACCACTCTGTTTGGCTAGTATAGAGCA-C-AGAGGG----GATTCTGAAGTTCCTGTGTGTCCCA-----------------------ACGAGGAACATGGAAAAGAAC--------TCAGAGCATACATGGTACTGATTTCATGAGTCACCTGAACATCTACGTACA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=317770.000000
s hg38.chr21_GL383579v2_alt     88036 33 +    201197 AGTTTGCGTGGGGCTGAGAACAGAATGTAATCT
s panTro5.chr21               8706395 33 +  33445071 AGTTTGCGTGGGGCTGAGAACAGAATGTAATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245608 33 +  46275980 AGTTTGCGTGGGGCTGAGAACAGAATGTAATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228209 33 -  13858734 AGTTTGCGTGGGGCTGAGAACAGAATGTAATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257101 33 +  32716333 AATTTGCGTGGGGCTGAGAACAGAATGTAATCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664766 33 - 185818997 AGTTTGCGTGGGGCTGAGAACATAATGTAATCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300917 33 - 192294377 AGTTTGCGTGGGGCTGAGAACATAATGTAATCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924803 33 -  30496662 AGTTTGCGTGGGGCTGAGAACATAATGTAATCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449654 33 +  21915920 AGTTTGCGTGGGACTGAGAACAGAATGTAATCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951116 33 -  90373283 AGTTTGCATGGGGCTGAGAACAGAATGTAATCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454625 33 +   7543664 AGTTTGCGTGGGACTGAGAACAGAATGTAATCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225776 33 -  13750039 AGTTTGCACGGGGCTGAGAACAGAATGTAATCT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678844 33 +  13128814 AGTTCACATGGGGCTGAGAACAGAATGTAATCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907143 33 -  14377064 AGTTCACATGAGGCTGAGAACAGAATGTAATCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139017 33 -   9889416 AGTTCACATGGGGCTGAGAACAGAATGTAATCT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18027639 33 +  39895921 CGTTCACATGAGACTGTAAACAGGGTATGATTT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I
e otoGar3.GL873528           24850244 13 -  38779656 I

a score=5473.000000
s hg38.chr21_GL383579v2_alt     88069 2 +    201197 TA
s panTro5.chr21               8706428 1 +  33445071 T-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245641 1 +  46275980 T-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228242 2 -  13858734 TA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257134 2 +  32716333 TA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664799 2 - 185818997 TA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300950 2 - 192294377 TA
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4924836 2 -  30496662 TA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449687 2 +  21915920 TA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951149 2 -  90373283 TA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454658 2 +   7543664 TA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225809 2 -  13750039 TA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678877 2 +  13128814 TA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907176 2 -  14377064 TA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139050 2 -   9889416 TA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18027672 0 +  39895921 C
e calJac3.chr21              26485373 49 +  50472720 I
e otoGar3.GL873528           24850244 13 -  38779656 I

a score=6006.000000
s hg38.chr21_GL383579v2_alt     88071 1 +    201197 A
s gorGor5.CYUI01015003v1      8228244 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257136 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664801 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924838 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449689 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951151 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454660 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225811 1 -  13750039 A
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678879 1 +  13128814 A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907178 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139052 1 -   9889416 A
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e macFas5.chr3              167300952 1 - 192294377 I
e canFam3.chr31              18027672 0 +  39895921 C
e calJac3.chr21              26485373 49 +  50472720 I
e otoGar3.GL873528           24850244 13 -  38779656 I
e panPan2.chr21              22245642 0 +  46275980 C
e panTro5.chr21               8706429 0 +  33445071 C

a score=1018.000000
s hg38.chr21_GL383579v2_alt     88072 2 +    201197 AA
s panTro5.chr21               8706429 2 +  33445071 TA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245642 2 +  46275980 TA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228245 2 -  13858734 AA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257137 2 +  32716333 AA
i nomLeu3.chr25             C 0 C 0
s aotNan1.NW_018487195v1      9139053 2 -   9889416 AA
i aotNan1.NW_018487195v1    C 0 I 8
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cerAty1.NW_012002954v1     13449690 0 +  21915920 C
e macNem1.NW_012015021v1      4924839 0 -  30496662 C
e macFas5.chr3              167300952 1 - 192294377 I
e rheMac8.chr3              160664802 0 - 185818997 C
e cebCap1.NW_016107322v1     13907179 0 -  14377064 C
e canFam3.chr31              18027672 0 +  39895921 C
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8678880 0 +  13128814 C
e otoGar3.GL873528           24850244 13 -  38779656 I
e colAng1.NW_012120598v1      5225812 0 -  13750039 C
e manLeu1.NW_012103476v1      3454661 0 +   7543664 C
e chlSab2.chr2               19951152 0 -  90373283 C

a score=227446.000000
s hg38.chr21_GL383579v2_alt     88074 259 +    201197 GGAGATTctttgggaggccgaggcgggcggatcacgaggtcaggagattgagaccatcctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaattagccgggcgtggtggcgggcgcctgtggtctcagctact-ccggaggctgaggcaggaaaatggcgtgaacccgggaggcggagcttgcagtgagcggaaattgcgccactgcactccagcctgggagacagagcgagactccatctcaaaaaa
s panTro5.chr21               8706431 259 +  33445071 GGAGATTcttccggaggccgaggcgggcggatcacgaggtcaggagatcgagaccattctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaattagccgtgagtggtggcgggcgcctgtagtctcagctact-ccggaggctgaggcaggaaaatggcgtgaacccgggaggcggagcttgcagtgagcggaaatcgcgccactgccctccagcctgggcgacagagcgagactccgtctcaaaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245644 260 +  46275980 GGAGATTcttcgggaggccgaggcgggtggatcacgaggtcaggagatcgagaccatcctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaattagccgtgagtggtggcgggtgcctgtagtctcagctactcccggaggctgaggcaggaaaatggcgtgaacccgggaggcggagcttgcagtgagcggaaatcgcgccactgccctccagcctgggcgacagagcgagactccgtctcaaaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228247 258 -  13858734 GGAGATTctttgggaggccga-gcgggcggatcacgaggtcaggagatcgagaccattctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaattagccgggagtggtggcgggcgcctgtagtctcagctact-cctgaggctgaggcaggaaaatggcgtgaacccgggaggcggagcttgcagtgagcggaaatcgcgccactgcactccagcccgggagacagagcgagactccgtctcaaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257139 259 +  32716333 GGAGATTctttgggaggccaaggcgggcggatcacgacgtcaggagatccagaccatcctggctaacacggtgaaactccgtctctactaaaaatacaaaaaaattagccggccgtggtggcgggcgcctgtagtctcagctact-cccgaggctgaggcaggaaaatggcgtgaaccctggaggcggagcttgcagtgagccgaaatcgcgccactgcactccagcctgggcgacagagcgagactccgtctcaaaaaa
i nomLeu3.chr25             C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cerAty1.NW_012002954v1     13449690   0 +  21915920 C
e macNem1.NW_012015021v1      4924839   0 -  30496662 C
e macFas5.chr3              167300952   1 - 192294377 I
e rheMac8.chr3              160664802   0 - 185818997 C
e cebCap1.NW_016107322v1     13907179   0 -  14377064 C
e canFam3.chr31              18027672   0 +  39895921 C
e aotNan1.NW_018487195v1      9139055   8 -   9889416 I
e calJac3.chr21              26485373  49 +  50472720 I
e saiBol1.JH378168            8678880   0 +  13128814 C
e otoGar3.GL873528           24850244  13 -  38779656 I
e colAng1.NW_012120598v1      5225812   0 -  13750039 C
e manLeu1.NW_012103476v1      3454661   0 +   7543664 C
e chlSab2.chr2               19951152   0 -  90373283 C

a score=7185.000000
s hg38.chr21_GL383579v2_alt     88333 12 +    201197 aaaaaaaaaaac
s panTro5.chr21               8706690 12 +  33445071 aaaaaaaaaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245904 12 +  46275980 aaaaaaaaaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228505 12 -  13858734 aaaaaaaaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257398  4 +  32716333 aaaa--------
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24850257 12 -  38779656 AAAAAAGAGAAT
i otoGar3.GL873528          I 13 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e cerAty1.NW_012002954v1     13449690  0 +  21915920 C
e macNem1.NW_012015021v1      4924839  0 -  30496662 C
e macFas5.chr3              167300952  1 - 192294377 I
e rheMac8.chr3              160664802  0 - 185818997 C
e cebCap1.NW_016107322v1     13907179  0 -  14377064 C
e canFam3.chr31              18027672  0 +  39895921 C
e aotNan1.NW_018487195v1      9139055  8 -   9889416 I
e calJac3.chr21              26485373 49 +  50472720 I
e saiBol1.JH378168            8678880  0 +  13128814 C
e colAng1.NW_012120598v1      5225812  0 -  13750039 C
e manLeu1.NW_012103476v1      3454661  0 +   7543664 C
e chlSab2.chr2               19951152  0 -  90373283 C

a score=45793.000000
s hg38.chr21_GL383579v2_alt     88345 10 +    201197 aaa-----GGAGATT
s panTro5.chr21               8706702 15 +  33445071 aaaaaaaTGGAGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245916 15 +  46275980 aaaaaaGTGGAGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228517 13 -  13858734 aaaaaa--GGAGATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257402  7 +  32716333 --------GGAGATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664802 10 - 185818997 AAA-----GGAGATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300953 10 - 192294377 AAA-----GGAGATA
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4924839 10 -  30496662 AAA-----GGAGATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449690 10 +  21915920 AAA-----GGAGATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951152 10 -  90373283 AAA-----GGAGATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454661 10 +   7543664 AAA-----GGAGATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225812 10 -  13750039 AAA-----GGAGATA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678880 10 +  13128814 AAA-----TGAGATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907179 10 -  14377064 AAA-----GGAGACA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24850269  1 -  38779656 ------------A--
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027672 10 +  39895921 AAA-----GGAGATA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e aotNan1.NW_018487195v1      9139055  8 -   9889416 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=748357.000000
s hg38.chr21_GL383579v2_alt     88355 77 +    201197 CTGTGCCCGCAGGGGAAGATAC-TTTGGGTACTCCAGCAGTAGATGCAGTAAGGA--------------TAGAGAC--------------AAAGCACAGAGAAAAA
s panTro5.chr21               8706717 77 +  33445071 CTGTGCCAGCAGGGGAAGATAC-TTTGGGTACTCCAGCAGTAGATGCAGTAAGGA--------------TAGAGAC--------------AAAGCACAGAGAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22245931 77 +  46275980 CTGTGCCAGCAGGGGAAGATAC-TTTGGGTACTCCAGCAGTAGATGCAGTAAGGA--------------TAGAGAC--------------AAAGCACAGAGAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228530 77 -  13858734 CTGTGCCAGCAGGGGAAGATAC-TTTGGGTACTCCAGCAGTAGATGCAGTAAGGA--------------TAGAGAC--------------AAAGCACAGAGAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257409 77 +  32716333 CTGTACCAGCAGGGGGAGATAC-TTTGGGTACTCCAGCAGTAGATGCACTAAGGA--------------TAGAGAC--------------AAGGCACAGAGAAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664812 77 - 185818997 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGATAC--------------ATAGCACAGAGAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167300963 77 - 192294377 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGATAA--------------ATAGCACAGAGAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924849 77 -  30496662 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGATAC--------------ATAGCACAGAGAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449700 77 +  21915920 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGAGAC--------------ATAGCACGGAGAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951162 77 -  90373283 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGAGAC--------------ATAGCACAGAGAAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454671 77 +   7543664 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGAGAC--------------ATAGCACGGAGAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225822 77 -  13750039 CTGTGCCAGCAAGGGAAGATAC-TTTGGGTACTCCAGCTGTAGATGCAGTAAGGA--------------TAGAGAC--------------ATAGCACAGAGAAAAA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678890 78 +  13128814 CTAGGCCAGCAGGGGAAGATACAATTGGGTACTTCACCAGAAGATGCAGTAAGGA--------------TTGAGAC--------------ATAGCACAGAGAAAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907189 77 -  14377064 CTGAGCCAGCAGGGGAAGATAC-ATTGGGTACTTCACCAGAAGATGCAGTAAGGA--------------TTGAGAC--------------ATAGCACAGAGAAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139063 77 -   9889416 CTGTGCCAGCAGGGGAAGATAC-ATTGGGTACTTCACCAGAAGACGCAGTAAGGA--------------TTGAGAC--------------AAAGCACAGAGAAAAA
i aotNan1.NW_018487195v1    I 8 I 45
s otoGar3.GL873528           24850270 91 -  38779656 CTGTGGCAACAGGAGAAGATAC-GGTGTGCATTTGAGCAGCAGATGCAATAAGGA--------------CAGAGACTGAAGTCTAGAGGTGCAGCACAGTCCAAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027682 87 +  39895921 CTGTGCCAAC---TGAAGATAT-ACTGGGCACTTCAGCAATAGATGCTGTAAGGATACTGACTGAAGTCTAAAAAC--------------ATGGCACGGTGGAAA-
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=171707.000000
s hg38.chr21_GL383579v2_alt     88432 23 +    201197 TGTTAATGAACTAGAGTGTACCT
s panTro5.chr21               8706794 23 +  33445071 TGTTAATGAACTAGAGTGTACCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246008 23 +  46275980 TGTTAATGAACTAGAGTGTACCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228607 23 -  13858734 TGTTAATGAACTAGAGTGTACCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257486 23 +  32716333 TGTTAATGAACTAGAGTGTACCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664889 23 - 185818997 TATGCATGAACTAGAATGTATCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301040 23 - 192294377 TATGCATGAACTAGAATGTACCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924926 23 -  30496662 TATGCATGAACTAGAATGTACCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449777 23 +  21915920 TATTCATGAACTAGAGTGTACCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951239 23 -  90373283 TATTCATGAACTAGAGTGTACCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454748 23 +   7543664 TATTCATGAACTAGAGTGTACCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225899 23 -  13750039 TATTCATGAACTAGAGTGTACCT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678968 23 +  13128814 CATTCGTAAACTAGAGTGTACCC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907266 23 -  14377064 CATTCGTAAACTAGAGTGTACCC
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24850361 22 -  38779656 CATCCAT-AATTGGTGTGTAAAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027769 23 +  39895921 TACTCATGAACCAGGATCTGACC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e aotNan1.NW_018487195v1      9139140 45 -   9889416 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=401779.000000
s hg38.chr21_GL383579v2_alt     88455 47 +    201197 TTGGATAAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTAAGTATTTACC
s panTro5.chr21               8706817 47 +  33445071 TTGGATAAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTAAGTATTTACC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246031 47 +  46275980 TTGGATAAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTAAGTATTTACC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228630 47 -  13858734 TTGGATAAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTAAGTATTTACC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257509 47 +  32716333 TTGGATAAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTAAGTATTTACC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664912 45 - 185818997 TTGGATTAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTA--TATTTACC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301063 45 - 192294377 TTGGATTAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTA--TATTTACC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924949 45 -  30496662 TTGGATTAAGGGA---------------------------GCATTCAAAAATTCTGGAAGACTA--TATTTACC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449800 72 +  21915920 TTGGATTAAGGGAGCATTCAAAAATTCCGGAAGAAAGGGTGCATTCAAAAATTCTGGAAGACTA--TATTTACC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951262 72 -  90373283 TTGGATTAAGGGAGCATTCAAAAATTCTGGAAGAAAGGGAGCATTCAAAAATTCTGGAAGACTA--TATTTACC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454771 72 +   7543664 TTGGATTAAGGGAGCATTCAAAAATTCCGGAAGAAAGGGTGCATTCAAAAATTCTGGAAGACTA--TATTTACC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225922 72 -  13750039 TTGGATTAAGGGAGCATTCAAAAATTCTGGAAGAAAGGCAGCATTCAAAAAATCTGGAAGACTA--TATTTACC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8678991 47 +  13128814 TTGGATAAAGGAA---------------------------GCATTTAAAAATTCTGGAATACTAAGCATTTACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907289 47 -  14377064 TTGGATAAAGGAA---------------------------GCATTTAAAAATTCTGGAATACTAAGTATTTACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139185 47 -   9889416 TTGGATAAAGGAA---------------------------GCATTTAAAAATTCTGGAATACTAAGTATTTACA
i aotNan1.NW_018487195v1    I 45 C 0
s otoGar3.GL873528           24850383 46 -  38779656 TCGGATAGAAAAA---------------------------GCATTTAGAAACTCTGGTAGGCTAAATATTTAC-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027792 47 +  39895921 TGGGATAAAGGAA---------------------------TCACCTGGAAATTCTGGAAGACCAAGTATTTAGC
i canFam3.chr31             C 0 I 1
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=895082.000000
s hg38.chr21_GL383579v2_alt     88502 116 +    201197 ACTTAATAGACAAAATCTAGTTCTTGtttattcgacatgtatttactgatcagctggtatgtgccaaatattggtctagactctggggatgcagcaaataattttaaaaagagaca
s panTro5.chr21               8706864 116 +  33445071 ACTTAATAGACAAAATCTAGTTCTTGtttattcgccatgtatttactgatcagctggtatgtgccaaatattggtctagactctggggatgcagcaaataattttaaaaagagaca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246078 116 +  46275980 ACTTAATAGACAAAATCTAGTTCTTGtttattcgccatgtatttactgatcagctggtatgtgccaaatattggtctagactctggggatgcagcaaataattttaaaaagagaca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228677 116 -  13858734 ACTTAATAGACAAAATCTAGTTCTTGtttattcgacatgtatttactgatcagctggtatgtgccaaatattggtctagactctggggatgcagcaaataattttaaaaagagaca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257556 116 +  32716333 ACTTAATAGACATAATCTAGTTATTGtttactcaacatgtatttactgatcacctagtgtgtgccaaatattgatctagactctggggatgcagcaaataattttaaaaagagaca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160664957 116 - 185818997 ACTTAATAGACATAATCTTGTTCTTGtttgttcgacatgtatttactgatcacctggtatgtgccaaacattggtctagactctggggatgcagcaagtaattttaagaagagaca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301108 116 - 192294377 ACTTAATAGACATAATCTTGTTCTTGtttgttcgacatgtatttactgatcacctgatatgtgccaaacattggtctagactctggggatgcagcaagtaattttaagaagagaca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4924994 116 -  30496662 ACTTAATAGACATAATCTTGTTCTTGtttgttcgacatgtatttactgatcacctggtatgtgccaaacattggtctagactctggggatgcagcaagtaattttaagaagagaca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449872 116 +  21915920 ACATAATAGACATAATCTTGTTCTTGtttgtttgacatgtatttactgatcacctgttacgtgccaaacattggtctagactctggggatgcagcaagtaattttaagaagagaca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951334 116 -  90373283 ACATAATAGACATAATCTTGTTCTTGtttgtttaacatgtatttactgatcacctgttacgtgccaaacattggtctagactctggggatgtagcaagtaattttaagaagagaca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454843 116 +   7543664 ACATAATAGACATAATCTTGTTCTTGtttgtttgacatgtatttactgatcacctgttacgggccaaacattggtctagactctggggatgcagcaagtaattttaagaagagaca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5225994 116 -  13750039 ACTTAATAGATATAATCTTGTTCTTGtttgtttgacatgtatttactgatcacttggtatgtgccaaacattggtctagactcttaggatgcagcaaataattttaagaagagaca
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679038 115 +  13128814 ACTTAATAGACATAATCTAGAacttgtttatttgacatgtgtttcct-attacctggtatgtgccaaatattggtctatactctggggatgcatcaaataattttaaaaagagaca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907336 115 -  14377064 ACTTAATAGACATAATCTAGAGCTTGTTTCTTTGACATGTCTTTCCT-ATTAcctggtatgtgccaagtattggtctatactctggggatgcatcgaataattttaaaaagagaca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139232 115 -   9889416 ACTTAGTAGACATAATCTAGAatttgtttatttgacatgtatttcct-attacctagtatgtgccaaatattgatctatactctggggatgcatcaaataattttaaaaagagaca
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24850429   2 -  38779656 ------------------------------------------------------------------------------------------------------------------CC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e canFam3.chr31              18027839   1 +  39895921 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=340949.000000
s hg38.chr21_GL383579v2_alt     88618 35 +    201197 aaagGTGAGACTGAGTAAATCT--GAGTTACTGAAAT
s panTro5.chr21               8706980 33 +  33445071 aaaTGTGAGAATGAGTAAATCT----GTTACTGAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246194 33 +  46275980 aaaTGTGAGACTGAGTAAATCT----GTTACTGAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228793 35 -  13858734 aaagGAGAGACTGAGTAAATCT--GAGTTACTGAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257672 35 +  32716333 aaagGAGAGACTGAGTAAATCT--GAGTTACTGAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665073 37 - 185818997 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301224 37 - 192294377 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925110 37 -  30496662 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13449988 37 +  21915920 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951450 37 -  90373283 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454959 37 +   7543664 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226110 37 -  13750039 aaagGAGAGACTGAGTAAATCTGTGAGTTACTGAAAT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679153 37 +  13128814 aaagGAGAAACTGAGTAAATCTGTGAGTTATTGAAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907451 33 -  14377064 aaagGAGAAACTGAGTAAATCT----GTTACTGAAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139347 37 -   9889416 aaagGAGAAACTGAGTAAACCTGTGAGTTACTGAAAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24850431 37 -  38779656 AGAAGAGAATCTAAGTAAATCTGTGAATGTCTGAGCT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027840 35 +  39895921 AAGAGAGAGACTGAATAAACTT--GAGTTACTGAGTT
i canFam3.chr31             I 1 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e dasNov3.JH578070            2345214 5993 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=445593.000000
s hg38.chr21_GL383579v2_alt     88653 39 +    201197 AAATCAGAAGTGATTGTTAATTTACATGAATTTCATTAG
s panTro5.chr21               8707013 39 +  33445071 AAATCAGAAGTGATTGTTAATTTACATGAATTTCATTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246227 39 +  46275980 AAATCAGAAGTGATTGTTAATTTACATGAATTTCATTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228828 39 -  13858734 AAATCAGAAGTGATTGTTAATTTACATGAATTTCGTTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257707 39 +  32716333 AAATCAGAAGTGATTGTTAATTTACATGAATTTCATTAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665110 39 - 185818997 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301261 39 - 192294377 AAATCAGAAGTGGTTGTTAATTTACATGAATTTCACTAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925147 39 -  30496662 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450025 39 +  21915920 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951487 39 -  90373283 AGATCAGAAGTGATTGTTAATTTACATGAATTTCACTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3454996 39 +   7543664 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226147 39 -  13750039 AAATCAGAAGTGATTGTTAATTTACATGAATTTCAGTAG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679190 39 +  13128814 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907484 39 -  14377064 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139384 39 -   9889416 AAATCAGAAGTGATTGTTAATTTACATGAATTTCACTAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24850468 29 -  38779656 GAATCAAAAGTGTCTGTTCACTTA----------AGTAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18027875 39 +  39895921 AAATCAGAGGTGATTGTTATTTTAAACGGATCTGATTAG
i canFam3.chr31             C 0 I 122
s dasNov3.JH578070            2351207 39 +   3081153 aaaaaagaaGTAATTGTTATTTTAAAAGAATCTAACTAA
i dasNov3.JH578070          I 5993 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=280472.000000
s hg38.chr21_GL383579v2_alt     88692 28 +    201197 GTATGATGCTTGTTTT-CTGGATACTGAG
s panTro5.chr21               8707052 28 +  33445071 GTATGATGCTTGTTTT-CTGGATACTGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246266 28 +  46275980 GTATGATGCTTGTTTT-CTGGATACTGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228867 28 -  13858734 GTATGATGCTTGTTTT-CTGGATACTGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257746 28 +  32716333 GTACGATGCTTGTTTT-CTGGATACTGAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665149 28 - 185818997 GTATGGTGCTTGTTTT-CTGGATACTGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301300 28 - 192294377 GTATGGTGCTTGTTTT-CTGGATACTGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925186 28 -  30496662 GTATGGTGCTTGTTTT-CTGGATACTGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450064 28 +  21915920 GTATGGTGCTTGTTTT-CTGGATACTGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951526 28 -  90373283 GTATGGTGCTTGTTTT-CTGGATACTGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455035 28 +   7543664 GTATGGTGCTTGTTTT-CTGGATACTGAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226186 28 -  13750039 GTATGGTGCTTGTTTT-CTGGATACTGAG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679229 28 +  13128814 ATCTGATGCTTTCTTT-CTGGATACTGGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907523 28 -  14377064 ATCTGATGCTTTTTTT-CTGGATACTGAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139423 28 -   9889416 ATCTGATGCTTTTTTT-CTGGATACTGAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24850497 21 -  38779656 ATATGATGCTTGTTTT-GGGGG-------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028036 29 +  39895921 CTTTAGAGTTTATTTTGGTGAGTAATGAG
i canFam3.chr31             I 122 C 0
s dasNov3.JH578070            2351246 28 +   3081153 GTATGATACTTTTTTT-CTAAGTACTGAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23677004 590 +  47401472 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=822149.000000
s hg38.chr21_GL383579v2_alt     88720 72 +    201197 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTAATTTCTACATATTTGAGTTAA
s panTro5.chr21               8707080 72 +  33445071 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTAATTTCTACATATTTGAGTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246294 72 +  46275980 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTAATTTCTACATATTTGAGTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228895 71 -  13858734 TG-GAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTAATTTCTGCATATTTGAGTTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257774 71 +  32716333 TGTGAGTGATAAATTATGAGAAA-TTAAACAGTTATGGAGAAAAAT-----AG-----------TTAATTTCTACATATTTGAGTTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665177 72 - 185818997 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGAGTTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301328 72 - 192294377 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGAGTTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925214 72 -  30496662 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGAGTTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450092 72 +  21915920 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGAGTTGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951554 72 -  90373283 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGAGTTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455063 72 +   7543664 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGAGTTGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226214 77 -  13750039 TGTGAATGGTAAATTATGAGAAAGTTAAACAGTTATGGAGAAAAAT-----AG------CTTATTTTATTTCTACATATTTGAGTTGA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679257 72 +  13128814 TGTGAATGGTAAATTATGAGAAAGTTAAATAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGGGTTAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907551 72 -  14377064 TGTGAATGGCAAGTTATGAGAAAGTTAAATAGTTATGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGGGTTAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139451 72 -   9889416 TGTGAATGGTAAATTATAAGAAAGTTAAATAATTAAGGAGAAAAAT-----AG-----------TTTATTTCTACATATTTGGGTTAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23677594 72 +  47401472 TGTGAATAGAAAATTGTGAAAAAGTTGAATAGTTATGAAGAAAATT-----AG-----------TATATTTCTACATAGCTGAGTTAA
i micMur3.chr31             I 590 I 1112
s otoGar3.GL873528           24850518 71 -  38779656 TGTGAATAGAAAACTATGAAAAGGTTGAATAGTTATGAAGACAATT-----AG-----------TGTATCTGCACATAGA-GAGTTAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028065 83 +  39895921 TATGAAAGGGAAATTGTGAGAAGATTGAGTAGAGTGCAGGAAAAAC-----AAAGAAACCAAGCTATATTTCTACTTATCCAACTTAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2351274 76 +   3081153 TGTGAAAGGCAAGGTGTGAGGA-GTTGAGCAAAGATGtataatattttaaaaa-----------tatatttCTGCATATCTCAGCTAT
i dasNov3.JH578070          C 0 C 0
e calJac3.chr21              26485373 49 +  50472720 I

a score=32514.000000
s hg38.chr21_GL383579v2_alt     88792 3 +    201197 CGC
s panTro5.chr21               8707152 3 +  33445071 TGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246366 3 +  46275980 TGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228966 3 -  13858734 TGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257845 3 +  32716333 TGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665249 3 - 185818997 TGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301400 3 - 192294377 TGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925286 3 -  30496662 TGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450164 3 +  21915920 TGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19951626 3 -  90373283 TGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455135 3 +   7543664 TGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226291 3 -  13750039 TGC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679329 3 +  13128814 TAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13907623 3 -  14377064 TGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139523 3 -   9889416 TGC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24850589 3 -  38779656 TGC
i otoGar3.GL873528          C 0 I 46
s canFam3.chr31              18028148 3 +  39895921 TGT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2351350 3 +   3081153 AAC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23677666 1112 +  47401472 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=420309.000000
s hg38.chr21_GL383579v2_alt     88795 46 +    201197 TCCAGAAC-TGAAACCAATGTCAAGAATAAATGGTATATT------------TGATCTC
s panTro5.chr21               8707155 46 +  33445071 TCCAGAAC-TGAAACCAATGCCAAGAATAAATGGTATATT------------TGATCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246369 46 +  46275980 TCCAGAAC-TGAAACCAATGCCAAGAATAAATGGTATATT------------TGATCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8228969 46 -  13858734 TCCAGAAC-TGAAACCAATGCCAAGAATAAATGGTATATT------------TGATCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257848 46 +  32716333 TCCAGAAC-CGAAACCAAGGCCAAGAATAAATGGTATATT------------TGATCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665252 46 - 185818997 TCTAAAAC-TGAAACCAATGCTAAGAATAAATGGCATATT------------TGATCCC
i rheMac8.chr3              C 0 I 23
s macFas5.chr3              167301403 46 - 192294377 TCTAGAAC-TGAAACCAATGCTAAGAATAAATGGCATATT------------TGATCCC
i macFas5.chr3              C 0 I 23
s macNem1.NW_012015021v1      4925289 46 -  30496662 TCTAGAAC-TGAAACCAATGCTAAGAATAAATGGCATATT------------TGATCCC
i macNem1.NW_012015021v1    C 0 I 23
s cerAty1.NW_012002954v1     13450167 46 +  21915920 TCTAAAAC-TGAAACCAATGCTAAGAATAAATGGCATATT------------TGATCCC
i cerAty1.NW_012002954v1    C 0 I 23
s chlSab2.chr2               19951629 46 -  90373283 TCTAAAAC-TGAAACCAGTGCTAAGAATAAATGGCATATT------------TGATCCC
i chlSab2.chr2              C 0 I 23
s manLeu1.NW_012103476v1      3455138 46 +   7543664 TCTAAAAC-TGAAACCAATGCTAAGAATAAATGGCATATT------------TGATCCC
i manLeu1.NW_012103476v1    C 0 I 23
s colAng1.NW_012120598v1      5226294 46 -  13750039 TCTAAAAC-TGAAACCAATGCTAAGAATAAATGGCATATT------------TGATCTC
i colAng1.NW_012120598v1    C 0 I 23
s saiBol1.JH378168            8679332 47 +  13128814 TGTAAAACTTAAAACCAATGCCAAGAATAAATGATATATT------------TCATCTC
i saiBol1.JH378168          C 0 I 23
s cebCap1.NW_016107322v1     13907626 46 -  14377064 CGTAAAAC-TGAAACCAATGCCAAGAATAAATGATGTATT------------TCATCTC
i cebCap1.NW_016107322v1    C 0 I 23
s aotNan1.NW_018487195v1      9139526 46 -   9889416 CGTAAAAC-TGAAACCAATGCCAAGAATAAATGATATATT------------TCATCCC
i aotNan1.NW_018487195v1    C 0 I 23
s canFam3.chr31              18028151 58 +  39895921 TGCAAAAC-TAAAGCCAATGCCAATAATATACAATATATTGTAAATCTTTAATGATATC
i canFam3.chr31             C 0 I 14
s dasNov3.JH578070            2351353 41 +   3081153 TGTAAAAC-ATAAACTAATG-----ACTAATTGATATATT------------GGGTATC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23677666 1112 +  47401472 I
e calJac3.chr21              26485373 49 +  50472720 I
e otoGar3.GL873528           24850592 46 -  38779656 I

a score=4005742.000000
s hg38.chr21_GL383579v2_alt     88841 406 +    201197 -----------------------TGATGAATAT-TTTTATATTAGCATGTTTATGAAGATATTTGGA---------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGTGAACATTGCCTAATAACAGAACATATCATTTGATATAACTATCC------------ttatttatttatgtatttatttTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAGG-AAAGTACTGAGTATTTGTTTCTTTCTTATTATCTGTGAATGATAGTCTGAAATGTCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTATAAACATTTAAAATGCATTAAAGTCCATTAAAATTATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
s panTro5.chr21               8707201 406 +  33445071 -----------------------TGATGAATAT-TTTTATATTAGCATGTTTATGAAGATATTTGGA---------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGTGAACATTGCCTAATAACAGAACATATCATTTGATATAACTATCC------------ttatttatttatgtatttatttTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAGG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGTCTGAAATGTCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTATAAACATTTAAAATGCATTAAAGTCCATTAAAATTATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246415 406 +  46275980 -----------------------TGATGAATAT-TTTTATATTAGCATGTTTATGAAGATATTTGGA---------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGTGAACATTGCCTAATAACAGAACATATCATTTGATATAACTATCC------------ttatttatttatgtatttatttTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAGG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGTCTGAAATGTCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTATAAACATTTAAAATGCATTAAAGTCCATTAAAATTATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229015 402 -  13858734 -----------------------TGATGAATAT-TTTTATATTAGCATGTTTATGAAGATATTTGGA---------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGTGAACATTGCCTAATAACAGAACATATCATTTGACATAACTATCC----------------TTATTTATGTATTTATTTTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAGG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTATGAATGATAGTCTGAAATGTCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTATAAACATTTAAAATGCATTAAAGTCCATTAAAATTATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACATGTATGTTGGACCTGGCAGAACTACAATTCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9257894 402 +  32716333 -----------------------TGATGAATAT-TTTTATATTAGCATGTTTATGAAGATATTTGGA---------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTGCCTAATAACAGAACATATCATTTGATATAACTATCC----------------TTATTTATTTATTTATTTTCTGTGCTGTAATGGAAAAACAAAAATTGGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGTCTGAAATGTCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTATAAACATTTAAAATGCATTAAAGTCCATTAAAATTATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665321 413 - 185818997 -----------------------TGGTGAATAT-TTTTATGTTAGTATGTTTATGAAAATATTTGG----------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGCATGATTTGATACAACTATCC--------ttatttatttatttatttatttatttTCTTTGCTGTAATGGAAAAACAAAAATCAGCAACTTAATTCAAG-AAAGTACCGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATGTCAAAAGTGGTAATCATATGCAAAATAATATGAATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGATCTGGCAGAACTACAATTCT
i rheMac8.chr3              I 23 C 0
s macFas5.chr3              167301472 405 - 192294377 -----------------------TGGTGAATAT-TTTTATGTTAGTATGTTTATGAAAATATTTGG----------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGCATGATTTGATACAACTATCC------------ttatttatttatttatttatttTCTTTGCTGTAATGGAAAAACAAAAATCAGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATGTCAAAAGTGGTAATCATATGCAAAATAAT----ATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i macFas5.chr3              I 23 C 0
s macNem1.NW_012015021v1      4925358 409 -  30496662 -----------------------TGGTGAATAT-TTTTATGTTAGTATGTTTATGAAAATATTTGG----------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGCATGATTTGATACAACTATCC--------ttatttatttatttatttatttatttTCTTTGCTGTAATGGAAAAACAAAAATCAGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATGTCAAAAGTGGTAATCATATGCAAAATAAT----ATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTAGAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i macNem1.NW_012015021v1    I 23 C 0
s cerAty1.NW_012002954v1     13450236 400 +  21915920 -----------------------TGGTGAATAT-TTTTATGTTAGTATGTTTATGAAAATATTTGG----------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAGTTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGTATGATTTGATACAACTATCC----------------TTATTTATTTATTTATTTTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATGTCAAAAGTGGTAATTATATGCAAAA-AAT----ATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i cerAty1.NW_012002954v1    I 23 C 0
s chlSab2.chr2               19951698 409 -  90373283 -----------------------TGGTGAATAT-TTTTATGTTAGTATGTTTATGAAAATATTTGG----------------------------------TTGGAAATTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGTATGATTTGATACAACTATCC--------ttatttatttatttatttatttatttTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATATCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTACAGAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i chlSab2.chr2              I 23 C 0
s manLeu1.NW_012103476v1      3455207 407 +   7543664 -----------------------TGGTGAATAT-TTTTATGTTAGTATGTTTATGAAAATATTTGG----------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAGTTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGTATGATTTGATACAACTATCC--------ttatttatttatttatttatttatttTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATGTCAAAAGTGGTAATTATATGCAAAA-AAT----ATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTACAAAATGTC-TT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i manLeu1.NW_012103476v1    I 23 C 0
s colAng1.NW_012120598v1      5226363 417 -  13750039 -----------------------TGGTGAATAT-TTTTATGTTAATATGTTTATGAAAATATTTGG----------------------------------TTGGAAAGTAAC---TCAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTGCCTAATAACAGAACGCATCATTTGATACAACTCTCCttatttatttatttatttatttatttatttatttTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTTAATTCAAG-AAAGTACTGAGTATTTGTTTCTTTCTTGTTATCTGTGAATGATAGCCTGAAATGTCAAAAGTGGTAATTATATGCAAAATAAT----ATGA-CATA---A---CTTTACAAACATTTAAAATGCATTAAAGTCCATTAAAATCATGCTTTGGTTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATGTTGGACCTGGCAGAACTACAATTCT
i colAng1.NW_012120598v1    I 23 C 0
s saiBol1.JH378168            8679402 389 +  13128814 -----------------------TGATGAATAT-TTTTATATTAGTATGTCTATGAAGATGTTTGGA---------------------------------TTCCAGAGTGACTGTTTAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTCCCTAAT---AAAATATATCATTTGATATAACTATCC--------------------TTATTTATTTATTTTCTTTGCTGTAATGGAAAAACAAAAAATAGCAACTTAATTAAAC-AAAATACTGGATATTAGTTTCTTTCTTGCTACGTGTGAATGAT----TGAAAGGTCAAAAGTGGTCATTATATGAAAAATAAT----ATGA-CATA---A---TTTTACAAATATTTAAAATGCGTTGAAGTCCATTAAAATTATGTTTTGGCTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TACTTGTATTTTGGACCTGG-----CTACGATTCT
i saiBol1.JH378168          I 23 C 0
s cebCap1.NW_016107322v1     13907695 397 -  14377064 -----------------------TGATGAATAT-TTTTATATTAGTATGTCTATGAAGATGTTTGGA---------------------------------TTCTAGAGTAACTGTTTAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTCCCTAATAACAAAATATATCATTTGATATAACTATCC------------------------TTATTTATTTTCTTTGCTGTAATGGGAAAACAAAAATTAGCAACTTAATTAAAC-AAAGTACTGGATATTTGTTTCTTTCTTGCTAACTGTGAATGATCGTCTGAAAGGTCAAAAGTGGTGATTATATGAAAAATAAT----ATGG-CATA---A---CTTTACAAATATTTAAAATGCATTAAAGTCCATTAAAATTATGTTTTGGCTTCTGAAAGTACAAAATGTCTTT----------CCTAGAAA---TATTTGTATTTTAGACCTGGCAGAACTACGATTCT
i cebCap1.NW_016107322v1    I 23 C 0
s aotNan1.NW_018487195v1      9139595 397 -   9889416 -----------------------TGATGAATAT-TTTTATATTAGTATGTCTATGAAGATGTTTGGA---------------------------------TTCTAGAGTAAC----TAAGAAAAACAGCATGAATTTTCAGAATAAGAGAACATTACCTAATAGCAAAACATATCATTTGATATAACTATCT--------------------TTATTTATTTATTTTCTTTGCTGTAATGGAAAAACAAAAATTAGCAACTCAATTAAAC-AAAGTACTGGATATTTGTTTCTTTCTTGCTACCTGTGAATGATCGTCTGAAAGGTCAAAAGTGGTAATTATATGAAAAATAAT----ATGA-CATA---A---CTTCACAAATATTTAAAATGCGTTAAAGTCCATTGAAATTATGTTTTGGCTCCTGAAAGTACAAAATGTCTTT----------GCTAGAAA---TACTTGTATTTTGGACCTGGCAGAGCTACGATTCT
i aotNan1.NW_018487195v1    I 23 C 0
s otoGar3.GL873528           24850638 379 -  38779656 -----------------------TGAAGAATGCATTTTATATTAATATGTCTATGCAGA-----------------------------------------TTGGAAAG-AAC-----------------ATAAATTTAGAAAATAACAGGACATACCCTAATAATAGACCATATACTTTGGTACAACTATAC-----------------CCCTTATTCA-TTGTTTTCTTT----TAATGAACAAATAAAAATCAATAGGTTAGTTCAGT-AAAATACTGAAC-----TTTCTGAGTTATTCTCTGTGTATGCTAGTCTGAAATGTCAAAAATGGTAATTATATTAGTAGTAAT----ACGAGGATT---A---CTTTACAACCATTTAAAGTGCA-TAAAGTCCAT--AAAATAGCCTTTGATTTCTCAAAGTACAAAATATCTCTGTACTTTTCATCTAAAAGTATTACCTGTACTTTGGACACGG-AAAACCACAATTCT
i otoGar3.GL873528          I 46 C 0
s canFam3.chr31              18028223 418 +  39895921 -----------------------TGATGAGTATCTTTTATAATAATTTATCTATGTAGATGTGTAAATACATAGATATATCTATGTAGATCTAGGTTGTTCTTGAAAGAATT---TTAAGAAAAGGGACATAAATTTAGAGAATACTAGAACATCCCCTAAT---AGGACATATACTGTGGTTCAGCACCTC---------------------------TTTACCCACTTTTTAAAAATG----AACAAACATCATTTATTTAATTCAAT-GAAACAGTGAACAATTGTTTCCTTCTTG-TACCTGGGAATGACAGCCTGACATGCCAAAAGAGGTAATTCTTTG-AGAGCAAT----ATGA-TGTAAACA---CTTCATAAATATTTAAAATGCATAAAAATCCATAAAACTTAAGTTTTCGTGTCTC-AAGTACAAAACATTGTC----------CCTTTTAA---TACTTATATTTAGAACAAGGCAGAACCACTGTCGT
i canFam3.chr31             I 14 C 0
s dasNov3.JH578070            2351394 414 +   3081153 TTTAATCATATCTGCTATCACCATGATGAACATCTTCTGTGTTAACATGTTTATTCAGATAAGTGG----------------------------------TTGGAAAAGAAA-------GAAAAGTAACACAATTTTAGAGAATAATAGAG----ACCTAATGATGCAACATATATTTTGATGCAAAATACC-------------TCTTTACATATATATATGTAT---------TAATTAGCAGACTAAAATCAGCAAGTTATTTCAGCTAAAATACCAAACATCTGTTTCCTTCATGATACCTCTATATGAAAACCTGAAATGTTAAAA-TGGTAATTATATGACAAGTAGT----ACAA-TGTA---ATATCTTTACAAACCTTTAAAATGCATGAAAGGCAGTAATAATTAAGCTTTGGTTTCTCAAAGTACACAACATCTTT----------CCTACTGA---TATTTGTACTTAGGACATAGAATAAACACTATTTT
i dasNov3.JH578070          C 0 I 15
e micMur3.chr31              23677666 1112 +  47401472 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=84732.000000
s hg38.chr21_GL383579v2_alt     89247 7 +    201197 TTCACAT
s panTro5.chr21               8707607 7 +  33445071 TTCACAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246821 7 +  46275980 TTCACAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229417 7 -  13858734 TTCACAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258296 7 +  32716333 TTCACAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665734 7 - 185818997 TTCACGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301877 7 - 192294377 TTCACGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925767 7 -  30496662 TTCACGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450636 7 +  21915920 TTCACGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952107 7 -  90373283 TTCACGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455614 7 +   7543664 TTCACGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226780 7 -  13750039 TTCACGT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679791 7 +  13128814 TTCACAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908092 7 -  14377064 TTCACAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139992 7 -   9889416 TTCACAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23678778 7 +  47401472 TTCAGAT
i micMur3.chr31             I 1112 C 0
s otoGar3.GL873528           24851017 7 -  38779656 CTCAGGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028641 7 +  39895921 CTCACTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2351823 7 +   3081153 tccacat
i dasNov3.JH578070          I 15 I 207
e calJac3.chr21              26485373 49 +  50472720 I

a score=2887612.000000
s hg38.chr21_GL383579v2_alt     89254 244 +    201197 --------------------------------------------------------TTT-----------AAATAACAACAATGTAAAACGAGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCATTTATGTAAC--TGA-AACAGATATTGCCAACAGAGCAACTCCAAGAAAACATTACAAACCATTAAACAATAAGGGTTTCTGACCTGTTATTTTCTTCCACTAAGGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
s panTro5.chr21               8707614 244 +  33445071 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAACAAGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCATTTATGTAAC--TGA-AACAGATATTGCCAACAGAGCAACTCCAAGAAAACATTACAAACCGTTAAACAATAAGGGTTTCTGACCTGTTATTTTCTTCCACTAAGGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22246828 244 +  46275980 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAACAAGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCATTTATGTAAC--TGA-AACAGATATTGCCAACAGAGCAACTCCAAGAAAACATTACAAACTGTTAAACAATAAGGGTTTCTGACCTGTTATTTTCTTCCACTAAGGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229424 244 -  13858734 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAACAAGGCTGCAGCTGTCTCAGAGGAACACTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCATTTATGTAAC--TGA-AACAGATATTACCAACAGAGCAACTCCAAGAAAACATTACAAACCATTAAACAATAAGGGTTTCTGACCTGTTATTTTCTTCCACTAAGGGGAATATAAGGATTGAA-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258303 244 +  32716333 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAACAAGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATCGTTTTTCTGCTTTTCCAGACTCTCATTTATGTAAC--TGA-AACAGATATTGCCAACAGAGCAACTCCAAGAAAGCACTACAAACCATTAAACAATAAGGGCTTCTGACCTGTTATTTTCTTCCACTAAGGTGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665741 240 - 185818997 --------------------------------------------------------TTT-----------AAATACGAACAATGTAAAACAGGGCTGCAGCTGTCTCAGAGGAACCCTCAATC----GTTTTTCTGCTTTTCCAGACTCTCACTTATGTAAC--TGT-AACAGCTATTGCCAACAGAGAAACTCCAAGAAAACATTACAAACCATTAAACAATAAGGGTTTCTGAGCTGTTATTTTCTTCCACTAACGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167301884 240 - 192294377 --------------------------------------------------------TTT-----------AAATACGAACAATGTAAAACAGGGCTGCAGCTGTCTCAGAGGAACCCTCAATG----GTTTTTCTGCTTTTCCAGACTCTCACTTATGTAAC--TGT-AACAGCTATTGCCAACAGAGAAACTCCAAGAAAACATTACAAATCATTAAACAATAAGGGTTTCTGAGCTGTTATTTTCTTCCACTAACGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4925774 240 -  30496662 --------------------------------------------------------TTT-----------AAATACGAACAATGTAAAACAGGGCTGCAGCTGTCTCAGAGGAACCCTCAATC----GTTTTTCTGCTTTTCCAGACTCTCACTTATGTAAC--TGT-AACAGCTATTGCCAACAGAGAAACTCCAAGAAAACATTACAAACCATTAAACAATAAGGGTTTCTGAGCTGTTATTTTCTTCCACTAACGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450643 244 +  21915920 --------------------------------------------------------TTT-----------AAGTAAGAACAATGTAAAACAGGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCACTTATGTAAC--TGT-AACAGCTATTGCCAACAGAGAAACTCCAGGAAAACATTACAAACCATTAAACAATAAGGATTTCTGAACTGTTATTTTCTTCCACTAACGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952114 244 -  90373283 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAACAGGGTTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCACTTATGTAAC--TGT-AACAGCTATTGCCAACAGAGAAACTCCAAGAAAACATTACAAACCATTAAACAATAAGGGTTTCTGACCTGTTATTTTCTTCCACTAAGGGGAATATAAAGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455621 244 +   7543664 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAACAGGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTTCTGCTTTTCCAGACTCTCACTTATGTAAC--TGT-AACAGCTATTGCCAACAGAGAAACTCCAGGAAAACATTACAAACCATTAAACAATAAGGATTTCTGAACTGTTATTTTCTTCCACTAACGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCCGATTCATTCAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5226787 244 -  13750039 --------------------------------------------------------TTT-----------AAATAAGAACAATGTAAAAGAGGGCTGCAGATGTCTCAGAGGAACCCTCAATCAGTTGTTTTTCTGCTTTTCCAGACTCTCATTTATGTAAC--TGT-AACAGCTATTGCCAACGGAGAAACTCCAAGAAAACATTACAAACCATTAAACAATAAGGGTTTCTGACTTGTTATTTTCTTCCACTAAGGGGAATATAAGGATTGAG-AATAAACTGAAGAAGTCAAATAGCCAGATTCATTCAAAA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8679798 244 +  13128814 --------------------------------------------------------TTT-----------AAGTAAGAACAATGTAAAACGTGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTACTGCTTTTCCTAACTCTCATTTATGTAAC--AGT-AACAGATATTGCCAGTAGAGCAACTCCAAGAAAACATTACAAACCATTAAACAATAATCATTTCTGACCTGTTGTTTTCTTCCAGTAAAGGAAATATAAGAATTGAG-AAAAAACTGAATGAGTCAAATAGCCAGATTCATTCCAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908099 244 -  14377064 --------------------------------------------------------TTT-----------AAGTAAGAACAATGTGAAACGTGGCTGCAGCTGTCTCAGAGGAACCCTCAATCAATTGTTTTACTGCTTTTCCTAACTCTCATTTATGTAAC--TGT-AACAGATATTGCCAATAGAGCAACTCCAAGAAAACATTACAAACCATTAAACAGTAAGGGTTTCTGACCTGTTGTTTTCTTCTAGTAAAGGGGATATGAGAATCGAG-AAAAAACTGAATGAGTCAAATAGCCAGATTCATTCCAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9139999 245 -   9889416 --------------------------------------------------------TTT-----------AAGTAAGAACAATGTAAAACGTGGCTGCAGCTATCACAGAGGAACCCTCAATCAATTATTTTACTGCTTTTCCTAACTCTCATTTATGTAAC--TGT-AACAGATATTGCCAATAGATTAACTCCAAGAAAATATTACAAACCATTAAACAATAAGGATTTCTGACCTATTGTTTTCTTCCAGTAAAGGGAATATAAGAATTGAGAAAAAAAATGAATGAATCAAATAGCCAGATTCATTCCAAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23678785 240 +  47401472 --------------------------------------------------------TTT-----------AAATAAGAACAATCTAAAACAGGGTTGCAGCTGTCCCAGATGAGGCCTCAATCA----TGTTTTTGCTCTTCCAGACTCTCATTTATGTAACTGTG--AGCAGATATTGCAAGCAGAGAAACTCCAAGAAAACATTACAGACCATTAAGCAATAAGGGCTCCTGACCTTTCA-TTTCTCCCACTAAGGGGAAAATAAAGGTTGAT-ACGAAATTGAATAAGTCAAATAGCCAGAATCATTGAAAA
i micMur3.chr31             C 0 I 67
s otoGar3.GL873528           24851024 242 -  38779656 --------------------------------------------------------TTT-----------AAACAAGAACCATCTAAACCAGGGCTGCAGCTGTCCCTGGGGAGCCCTCAATCAATTGTGTTTCTGCTCTTCCAGGTTCTCATTTACATAAC--TG--AACAGATATTGCAAGCAGAGAAACTCCAAGAAAACATTACAAACCATTCAGCAGTGAGGGTTTCTGACCTTTCA-TTTCTCACACTAAGGGGAAAAGAAAGGTTGAG-ACTAAATTAGATAAGTCAACTAGCCAGAATCATaaaaaa
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028648 233 +  39895921 --------------------------------------------------------TTT-----------AAGTAAGCACAGTCTAAAACCAGGCTGTCACTGCCCCAAGGAAATCTTACATCAATCGTGTTTCTACAATCTCAAATTTTGATTTACCAACA--AGA-AACAGATATTGCCAGCA----------AAGGAAACATTACAAACTGCTCAACAGCAAAGGTCCCTGACCATGTA-TTTCTTCCACGAAGAGCAATGTGAAGACTGAG-GCTGAACTGAATAAGTCAAATAGCCAGATTCATTAAAAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2352037 307 +   3081153 tttaaaaaacattgaaagggggaatgtattgaattgcatcttaataaaggtcttattttaaaaTGAAAAAAAAAAAGAACAATCTAAAACAGGGCTGTTGCTATCCTAGAGGAGACTTCAGTTTATTGTTT--CTGCTCTCCAAGA--CTCATTTATGTATC--TGAGAACAGATATTGCCAGCAAAACAACGCCCGGAAAACAGTACAAACAATTAGACAGAAAGAGTACCTGACCTTTTA-TTTCTTCCACTAAAAGGAATATGAAGATTGAA-ACTATACTGAATGAGTCAAGTAACCATATTAATTAAAAA
i dasNov3.JH578070          I 207 C 0
e calJac3.chr21              26485373  49 +  50472720 I

a score=230059.000000
s hg38.chr21_GL383579v2_alt     89498 46 +    201197 CAGAGCATG-----------AAAAAAAAAAT-------------------CAGAGCA----AATTGGAACGTAAAGCTGT
s panTro5.chr21               8707858 47 +  33445071 CAGAGCATG----------AAAAAAAAAAAT-------------------CAGAGCA----AATTGGAACGTAAAGCTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247072 48 +  46275980 CAGAGCATGA---------AAAAAAAAAAAT-------------------CAGAGCA----AATTGGAACGTAAAGCTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229668 45 -  13858734 CAGAGCATG------------AAAAAAAAAT-------------------CAGAGCA----AATTGGAATGTAAAGCTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258547 45 +  32716333 CAGAGCATG------------AAAAAAAAAT-------------------CAGAGCA----AATTGGGATGTAAAGCTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160665981 45 - 185818997 CAGAGCATG------------AAAAAAAAAT-------------------CAGAGGA----ATTTAGAACGTAGAGCTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302124 45 - 192294377 CAGAGCATG------------AAAAAAAAAT-------------------CAGAGGA----ATTTAGAACGTAGAGCTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926014 45 -  30496662 CATAGCATG------------AAAAAAAAAT-------------------CAGAGGA----ATTTAGAACGTAGAGCTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450887 45 +  21915920 CAGAGCATG------------AAAAAAAAAT-------------------CAGAGGA----ATTTAGAACGTAGAGCTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952358 44 -  90373283 CAAAGCATG-------------AAAAAAAAT-------------------CAGAGGA----AATTAGAACATAGAGCTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455865 45 +   7543664 CAGAGCATG------------AAAAAAAAAT-------------------CAGAGGA----ATTTAGAACGTAGAGCTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227031 43 -  13750039 CAAAGCATG------------AAAAAAAA---------------------CAGAGGA----AATTAGAACGTAGAGCTAT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680042 57 +  13128814 CAGAGCATCaaaaaaaaaaaaaaaaaaaaaT-------------------CACAAGC----TGTTAGAATGTAAAATGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908343 80 -  14377064 CAGAGCATcacacacacacacacacacacacacacacacacacacacacacacaAGCAAGAAGTTAGAACAGAAAGTGAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140244 60 -   9889416 CAGAGCATTaaaaaaaaaaaaaaaaaaaaaa----------------aaTCACAAGA----AGTTAGAACATAAAGTGAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24851266 42 -  38779656 ---------------aaaaaagaaaaagaaa-------------------aaaagaa----agacagaaagaaaagaaaa
i otoGar3.GL873528          C 0 I 620
s canFam3.chr31              18028881 39 +  39895921 CAGAgaatg------------acaaaa-----------------------tagatga----aattgaaacaaagatgc--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2352344 36 +   3081153 TAGAGGATT-------------AAAAGAAAT-------------------CAGAGAA----CATGAAGAAGC--------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679025 67 +  47401472 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=139216.000000
s hg38.chr21_GL383579v2_alt     89544 11 +    201197 ATCTCTAGCAG
s panTro5.chr21               8707905 11 +  33445071 ATCTCTAGCAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247120 11 +  46275980 ATCTCTAGCAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229713 11 -  13858734 ATCTCTAGCAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258592 11 +  32716333 ATCTCTAGCAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666026 11 - 185818997 ATCTCTAGCAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302169 11 - 192294377 ATCTCTAGCAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926059 11 -  30496662 ATCTCTAGCAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450932 11 +  21915920 ATCTCTAGCAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952402 11 -  90373283 GTCTCTAGCAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455910 11 +   7543664 ATCTCTAGCAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227074 11 -  13750039 ATCTCTAGCAG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680099 11 +  13128814 ATCTCTAGCAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908423 11 -  14377064 ATCTCTAGCAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140304 11 -   9889416 ATCTCTAGCAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24851928 11 -  38779656 ATCTCCAGAAA
i otoGar3.GL873528          I 620 C 0
s canFam3.chr31              18028920 11 +  39895921 atctctggcaa
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2352380 11 +   3081153 ATCTCTGGAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679025 67 +  47401472 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=242881.000000
s hg38.chr21_GL383579v2_alt     89555 20 +    201197 CTTCAGATCAACAAATACAT
s panTro5.chr21               8707916 20 +  33445071 CTTCAGATCAACAAATACAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247131 20 +  46275980 CTTCAGATCAACAAATACAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229724 20 -  13858734 CTTCAGATAAACAAATACAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258603 20 +  32716333 CTTCAGATCAACAAATACAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666037 20 - 185818997 CTTCAGATCAACAAATACAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302180 20 - 192294377 CTTCAGATCAACAAATACAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926070 20 -  30496662 CTTCAGATCAACAAATACAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450943 20 +  21915920 CTTCAGATCAACAAATACAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952413 20 -  90373283 CTTCAGATCAACAAATACAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455921 20 +   7543664 CTTCAGATCAACAAATACAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227085 20 -  13750039 CTTCAGATCAACAAATACAT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680110 19 +  13128814 C-TTAGATCAACAAATCTAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908434 19 -  14377064 C-TCAGATCAACAAATATGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140315 19 -   9889416 C-TCAGATCAACAAATATAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23679092 20 +  47401472 CTTCAGATCAACACATACAT
i micMur3.chr31             I 67 C 0
s otoGar3.GL873528           24851939 20 -  38779656 GTTCAGATCAACAAATACAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028931 20 +  39895921 ctttgagtagacaaatgcat
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2352391 20 +   3081153 CTTCAGATCAAGAAATGCAT
i dasNov3.JH578070          C 0 C 0
e calJac3.chr21              26485373 49 +  50472720 I

a score=16405.000000
s hg38.chr21_GL383579v2_alt     89575 2 +    201197 -AA
s panTro5.chr21               8707936 2 +  33445071 -AA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247151 2 +  46275980 -AA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229744 2 -  13858734 -AA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258623 2 +  32716333 -AA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666057 2 - 185818997 -AA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302200 2 - 192294377 -AA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926090 2 -  30496662 -AA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450963 2 +  21915920 -AA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952433 2 -  90373283 -AA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455941 2 +   7543664 -AA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227105 2 -  13750039 -AA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680129 2 +  13128814 -AA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908453 2 -  14377064 -AA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140334 2 -   9889416 -AA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23679112 2 +  47401472 -AA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24851959 2 -  38779656 -AA
i otoGar3.GL873528          C 0 I 458
s dasNov3.JH578070            2352411 2 +   3081153 CG-
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18028951 0 +  39895921 C
e calJac3.chr21              26485373 49 +  50472720 I

a score=79203.000000
s hg38.chr21_GL383579v2_alt     89577 6 +    201197 ACTTTT
s panTro5.chr21               8707938 6 +  33445071 ACTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247153 6 +  46275980 ACTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229746 6 -  13858734 ACTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258625 6 +  32716333 ACTTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666059 6 - 185818997 ACTTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302202 6 - 192294377 ACTTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926092 6 -  30496662 ACTTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450965 6 +  21915920 ACTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952435 6 -  90373283 ACTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455943 6 +   7543664 ACTTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227107 6 -  13750039 ACTTTT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680131 6 +  13128814 ACTTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908455 6 -  14377064 ACTTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140336 6 -   9889416 ACTTTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23679114 6 +  47401472 ACTTTT
i micMur3.chr31             C 0 I 665
s otoGar3.GL873528           24852419 6 -  38779656 ACTTTC
i otoGar3.GL873528          I 458 C 0
s dasNov3.JH578070            2352413 6 +   3081153 AATTTT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18028951 0 +  39895921 C
e calJac3.chr21              26485373 49 +  50472720 I

a score=422778.000000
s hg38.chr21_GL383579v2_alt     89583 47 +    201197 CATACAGTAACCTAAATAGTGGATTGACTAAGG-----CATAAAT--AGATAAT
s panTro5.chr21               8707944 47 +  33445071 CATACAGTAACCTAAATAGTGGATTGACTAAGG-----CATAAAT--AGATAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247159 47 +  46275980 CATACAGTAACCTAAATAGTGGATTGACTAAGG-----CATAAAT--AGATAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229752 47 -  13858734 CATACAGTAACCTAAATAGTGGATTGACTAAGG-----CATAAAT--AGATAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258631 47 +  32716333 CATACAGTAACCTAAACAGTAGATTGACTAAGG-----CATAAAT--AGATAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666065 52 - 185818997 CATACAGTAACCTAAACAATGGATTGACTCAGGCATACCATAAAT--AGATAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302208 52 - 192294377 CATACAGTAACCTAAACAATGGATTGACTCAGGCATACCATAAAT--AGATAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926098 52 -  30496662 CATACAGTAACCTAAACAATGGATTGACTCAGGCATACCATAAAT--AGATAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13450971 52 +  21915920 CATACAGTAACCTAAACAATGGATTGACTCAGGCATACCATAAAT--AGATAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952441 52 -  90373283 CATGCAGTAACCTAAACAGTGGATTGACTCAGGCAAACCATAAAT--AGATAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3455949 52 +   7543664 CATACAGTAACCTAAACAATGGATTGACTCAGGCATACCATAAAT--AGATAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227113 52 -  13750039 CATACAGTAACCTAAACAGTGGATTGACTCAGGCATACCATAAAT--AGATAAT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680137 52 +  13128814 CATACAGTAACCTAAACAATAGATTGAGTCAGGTTCACCATAACT--AGATAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908461 52 -  14377064 CATACAGTAACCTAAACAGTAGATTAAGTCAGGTTCACCATAAAT--AGATAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140342 52 -   9889416 CATACAGTAACCTAAACAGTAGATTGAGTCAGGTTCACCATAACT--AGATAAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852425 54 -  38779656 AGTATAGTTACCTAGAAGACAGATTGAGTCAAGCATATCGCAAGTTGAAAGAGT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2352419 44 +   3081153 ----CAGTTATCTAGAAAACTTATAGATTCAAGGACACAATAAA---AAAT---
i dasNov3.JH578070          C 0 I 716
e micMur3.chr31              23679120 665 +  47401472 I
e canFam3.chr31              18028951  0 +  39895921 C
e calJac3.chr21              26485373 49 +  50472720 I

a score=1089561.000000
s hg38.chr21_GL383579v2_alt     89630 116 +    201197 CTAGGacttgtttattcaatgtgtatttactgatca-cttgtatgtgcaaagtattgatctagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
s panTro5.chr21               8707991 116 +  33445071 CTAGGacttgtttattcaacgtgtatttactgatca-cttgtatgtgcaaagtattgatctagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247206 116 +  46275980 CTAGGacttgtttattcaacgtgtatttactgatca-cttgtatgtgcaaagtattgatctagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229799 116 -  13858734 CTAGGacttgtttattcaacgtgtatttactgatct-cttgtatgtgcaaagtattgatctagattctcgggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258678 116 +  32716333 CTAAGacttgtttattcaacgtgtatttactgatca-cttgtatgtgcaaagtattgatctagattctggggatgcagcaaataa-----ttttttaaaagggacaaaattttactcttttg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666117 116 - 185818997 CTAGGacttgtttattcaacatgtatttactgatca-cttgtatgtgcaaagtattgatccagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302260 116 - 192294377 CTAGGacttgtttattcaacatgtatttactgatca-cttgtatgtgcaaagtgttgatccagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926150 116 -  30496662 CTAGGacttgtttattcaacatgtatttactgatca-cttgtatgtgcaaagtattgatccagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451023 116 +  21915920 CTAGGacttgtttattcaacatgtattttctgatca-cttgtatgtgcaaagtattgatccagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952493 116 -  90373283 CTAGGacttgtttattcaacatgtatttactgaaca-cttgtatgtgcaaagtattgatctagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456001 116 +   7543664 CTAGGacttgtttattcaacatgtatttactgatca-cttgtatgtgcaaagtattgatccagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227165 116 -  13750039 CTAGGacttgtttattcaacatgtatttactgatca-cttgtatgtgcaaaatattgatctagattctggggatgcagcaaataa-----ttttttaaaagagacaaaattttactcttttg
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680189 117 +  13128814 CTAGGacttgtttatttgacatgtatttaccgatcaccttgtatgtgctaagtattggtctagactctgggaatgcagcaAATAA-----TTTTTAACAAGAGAGGAAATTTTACTCTTTTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908513 117 -  14377064 CTAGGacttgtttattttacatatatttactgatcaccttgtatgtgctaagtattggtctagactctggggatgtggcaAATAA-----TTTTTAACAAGAGAGAAAATTTTACCCTTTGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140394 115 -   9889416 CTAGGacttgtttatttgacatgtatttactgatcaccttgtatgtgctaagtattggtctagactctggggatgcagcaaataa-----tttttaac--gagagaaaattttactcttttg
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852479 121 -  38779656 TTAGGACTTGTTTATCTGGCTCGTGCttactgatcc-cttacatatgccaaatattagtctagactcctgggggacagcagCCGATTAATTTTTTTAAAGGACCTACAATACTATCCTTTTG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e dasNov3.JH578070            2352463 716 +   3081153 I
e canFam3.chr31              18028951   0 +  39895921 C
e calJac3.chr21              26485373  49 +  50472720 I

a score=164092.000000
s hg38.chr21_GL383579v2_alt     89746 17 +    201197 gaTGTGACAA----GATAGTA
s panTro5.chr21               8708107 17 +  33445071 gaTGTGACAA----GATAGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247322 17 +  46275980 gaTGTGACAA----GATAGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229915 17 -  13858734 gaTGTGACAA----GATAGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258794 17 +  32716333 gTTGTGATAA----GATAGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666233 17 - 185818997 gGTGTGACAA----GATAGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302376 17 - 192294377 gGTGTGACAA----GATAGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926266 17 -  30496662 gGTGTGACAA----GATAGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451139 17 +  21915920 gGTGTGACAA----GATAGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952609 17 -  90373283 gGTGTGACAA----GATAGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456117 17 +   7543664 gGTGTGACAA----GATAGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227281 17 -  13750039 gGTGTGACAA----GATAGTA
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680306 17 +  13128814 GATATGACAA----GATAGTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908630 17 -  14377064 GATGTGACAA----GATAGTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140509 17 -   9889416 gaTGTGACAA----GATAGTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852600 21 -  38779656 GATACTGTAATATGGAAAGTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028951 17 +  39895921 gacattatag----aatagta
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e dasNov3.JH578070            2352463 716 +   3081153 I
e calJac3.chr21              26485373 49 +  50472720 I

a score=1002026.000000
s hg38.chr21_GL383579v2_alt     89763  99 +    201197 TTTTCTTTCTTCA-TTTTTTCCTTTTattcatttattcaacaaatatgtaatgaagaccaatgatgaggtgatagtatgacggttcctaaatccactttg
s panTro5.chr21               8708124  99 +  33445071 TTTTCTTTCTTCA-TTTTTTCCTTTTattcatttattcaacaaatatgtaatgaagaccaatgatgaggtgataggatgacggttcctaaatccactttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247339  99 +  46275980 TTTTCTTTCTTCA-TTTTTTCCTTTTattcatttattcaacaaatatgtaatgaagaccaatgatgaggtgataggatgacagttcctaaatccactttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8229932  99 -  13858734 TTTTCTTTCTTCA-TTTTTTCCTTTTattcatttattcaacaaatatgtaatgaagaccaatgatgaggtgatagtatgatggttcctaaatctactttg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258811  99 +  32716333 TTTTCTTTCTTCA-TTTTTTCCTTTTattcatttattcaacaaatatgtaatgaagaccaatgatgaggtgatagtatgatggttcctaaatctacttgg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666250  99 - 185818997 TTTTCTTTCGTCA-TTTTTTCCTTTTCttcatttattcaacaaatacgtaatgaagaccaatgatgaggtgatagtatgaccgttcgtaaatctactttg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302393  99 - 192294377 TTTTCTTTCGTCA-TTTTTTCCTTTTCTTCATTTATTCAACAAATACGTAATGAAGACCAATGATGAGGTGATAGTATGACCGTTCGTAAATCTACTTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926283  99 -  30496662 TTTTCTTTCGTCA-TTTTTTCCTTTTCttcatttattcaacaaatacgtaatgaagaccaatgatgaggtgatagtatgaccgttcgtaaatctactttg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451156  99 +  21915920 TTTTCTTTCGTCA-TTTTTTCCTTTTCttcatttattcaacaaatatgtaatgaagaccaatgatgaggtgatagtatgaccgttcgtaaatctactttg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952626  99 -  90373283 TTTTCTTTCATCA-CTTTTTCCTTTTCTTCATTTATTCAACAAATATGTAATAAAGACCAATGATGAGGTGACAGTATGACGGTTCCTAAACCTACTTTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456134  99 +   7543664 TTTTCTTTCGTCA-TTTTTTCCTTTTCttcatttattcaacaaatatgtaatgaagaccaatgatgaggtgatagtatgaccgttcgtaaatctactttg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227298  99 -  13750039 TTTTCTTTCGTCA-TTTTTTCCTTTTCttcatttattcaacaaatatgtaatgaagaccaatgatgaggtgatagtatgatggttcctaaacctactttg
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8680323  87 +  13128814 T-------------TTTTTTCCTTTTCTTCATTTATTCAACAAATACGTAATGAAGACCAATGATGGGGTGATAGAATGATGGTTCCTAAATCTTCTTTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908647  98 -  14377064 TTTTTTT-CTTCA-TTTTTTCCTTTTCTTCATTTATTCAACAAATATGTAATGAAGACCAATGATGGGGTGATAGAATGATGATTCCTAAATCTTCTTTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140526 100 -   9889416 TTTTTTTCCTTCATTTTTTTCCTTTTCTTCATTTATTCAACAAATATGTAATGAAGGTCATTGATGGGGTGATAGGATGATGGTTCCTAAATCTTCTTTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852621  99 -  38779656 TTTTATTTTTTCA-ACTTTTTTCTTTCTCTACTTATTCAACAAATATTTATTAAAAACCCATGAGGTAGCAATAGTTTGATAGCACCTAAATCGATCTTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18028968  77 +  39895921 ttttctttcttt--tttcTTCCCCTTCTTAGTTTATTCAATAAATGAGTATTGAAGACCAATAATAGGGAAAGAGTATG---------------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2353179  98 +   3081153 ttctCTTTCTTC--TTTTCTACATTTCCTCATTTATTCAACAAATATATATCAAAGGCAAATGATGGGACAATAGTATTCTGGTGACTGCATCTTTCTTG
i dasNov3.JH578070          I 716 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e calJac3.chr21              26485373  49 +  50472720 I

a score=2067264.000000
s hg38.chr21_GL383579v2_alt     89862 185 +    201197 atgaatagacaggttgattttctgccctcataacgctggaagcatagtgCATTTGCATGCCTCTAGAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAAATAT--TTATCTAAACTTTGAATTCGGAATGGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAATTGTG
s panTro5.chr21               8708223 184 +  33445071 atgaatagacaggttgattttctgccctcataacgctggaagcatagtgCATTTGCATGCCTCTAGAGTTG-T-AAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAAATAT--TTATCTAAACTTTGAATTCGGAATGGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAATTGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247438 185 +  46275980 atgaatagacaggttgattttctgccctcataacgctggaagcatagtgCATTTGCATGCCTCTAGAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAAATAT--TTATCTAAACTTTGAATTCGGAATGGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAATTGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230031 185 -  13858734 atgaatagacaggttgattttctgccctcataatgctggaagcatagtgCATTTGCATGCCTCTAGAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAAATAT--TTATCTAAACTTTGAATTCAGAATGGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAATTGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9258910 185 +  32716333 atgaatagacaggttggttttctgccctcataatgctggaagcatagtgCATTTGCATGCGTCTAGAATTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAAATAT--TTATCTAAACTTTGAATTCAGAATTGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAATTGTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666349 187 - 185818997 atgaatagacaggttggttttctgccctcataatgctggaagcatagtgCATTTGCATGCCTCTACAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAACTATGATTATCTAAACTTCAAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATGAATG-GATCTAAGGTCTTTAATTGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302492 187 - 192294377 ATGAATAGACAGGTTGGTTTTCTGCCCTCATAATGCTGGAAGCATAGTGCATTTGCATGCCTCTACAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAACTATGATTATCTAAACTTCAAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATGAATG-GATCTAAGGTCTTTAATTGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926382 187 -  30496662 atgaatagacaggttggttttctgccctcataatgctggaagcatagtgCATTTGCATGCCTCTACAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAACTATGATTATCTAAACTTCAAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATGAATG-GATCTAAGGTCTTTAATTGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451255 187 +  21915920 atgaatagacaggctggttttctgccctcataatgctggaagcatagtgCATTTGCATGCCTCTACAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAACTATGATTATCTAAACTTCAAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAGGTCTTTAATTGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952725 187 -  90373283 ATGAATAGACAGGTTGGTTTTCTGCCCTCATAATGCTGGAAGCATAGTGCATTTGCATGCCTCTACAGTTT-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAACATATGATTATCTAAACTTCGAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAATTGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456233 187 +   7543664 atgaatagacaggctggttttctgccctcaTAATGGTGGAAGCATAGTGCATTTGCATGCCTCTACAGTTG-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAACTATGATTATCTAAACTTCAAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAGGTCTTTAATTGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227397 187 -  13750039 atgaatagacaggttggttttctgccctcataatgctGGAATCATAGTGCATTTGCATGCCTCTACAGTTT-TAAAAA-ATAAGTGACTTGACTTT--CCTTTCTAAAAATATGATTATCTAAACTTTGAATTCAGAACTGTAAAATATGGGAAGTAAATTTAATTAATG-GATCTAAAGTCTTTAACCGTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485422 182 +  50472720 atGAATACACAGGTTGGCTTTCTGCCCTCATAATGATGAAAGCATAGTGCATTTGTATGCCTTTAGAGTTG-CAAAAA-ATAAGTGACTTGA-------TTTTCTAAAGATATTATTATTTAAACTTTGAATTCGGAATTGTAAACTATGAGAAGTAAAGTTAATTAATG-GATTTAAAGTCTTTAATTGTG
i calJac3.chr21             I 49 C 0
s saiBol1.JH378168            8680410 182 +  13128814 ATGCATACACAGGTTGGCTTTCTGCCCTCATAGTGATGGAAGCATAGTGAATTTGCATGCCTTTAGAGTTG-TAAAAA-ATAAGTGACTTGA-------TTTTCTAAAATTATTATTATCTAAACTTTGAATTCAGAATTGTAAAATATCAGAAGTAAAGTTAATTAATG-GATTTTAAGTCTTTAATTGTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908745 182 -  14377064 ATGAATACACAGGTTGGCTTTCTGCCCTCATAATGATGGAAGTATAGTGCATTTGTATGCCTTTAGAGTTG-TAAAAA-ATAAGTGACTTGA-------TTTTCTAAAAATATTATTATCTAAACTTTGAATTCAGAATTGTAAAATATGAGAAGTAAAGTTAATTAATG-GATTTAAAGTCTTTAATTGTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140626 179 -   9889416 ATGAATACACAGGTTGGCTTTCTGCCCTCATAATGATGGAAGCATAGTGCATTTGTATGCCTTTAGAGTTG-TAAAAA-ATAAGTGACTTGA-------TTTTCTAAAAA---TATTATCTAAACTTGGAATTCAGAATTGCAAAATATGAGAAGTAAAGTTAATTAATG-AATTTAAAGTCTTTAATTGTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852720 180 -  38779656 GTGGACAGACAGGCTCATTTTCACCTCTCACAATGCTGAACATGAGGTGCATTTTC-TGCCG-TAGTGTAA-TAAAAG-GTAAGTGAATTGACTCT--AGCTTTCAAAAATA---TTGTCTATAATTTGAAATCATATTTGTAAA--ATGAGAGGTGAGTATAATTAATA-GATCTTAAGTCCTCAGTTGTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18029045 178 +  39895921 ---------CTAGCCAATTTTCAACACTTAAAGAAGTGAAAGTTTGCTGTTCTTACATGTTGCTAGACTCA-CAAAAATGTAAGTAAATTGATTTT-ACCTTTCCAAAAATATTATTATCTAAATATTGAATTCAGATTTGTAAA--ATGAGAAATAAATGTAATTACTG-GATCTAGACTTCTTAATTGTA
i canFam3.chr31             C 0 I 787
s dasNov3.JH578070            2353277 185 +   3081153 ATGAGTAGACACTCTTGTTTTCTGTGCTCATAGAGCTTATAGAGTGTTACATATGCATGCTTCTAAAGTTGCTAAAAG-GTAAGTGAATTAACTTTGAATTTCCTAAAAA----AGTATCTAAAATTTGAGTTCAGAATTGCCAA--ATGTGAGGTAGATTTAATTAATGAGCTTTAAAGTCTCCGCTTGTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I

a score=302296.000000
s hg38.chr21_GL383579v2_alt     90047 30 +    201197 TTAAGTACCATGGGTGTTGCGAAGTTGAAA
s panTro5.chr21               8708407 29 +  33445071 -TAAGTACCATGGGTGTTGCGAAGTTGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247623 29 +  46275980 -TAAGTACCATGGGTGTTGCAAAGTTGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230216 29 -  13858734 -TAAGTACCATGGGTGTTGCGAAGTTGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259095 29 +  32716333 -AAAGTACCATGGGTGTTCCGAAGTTGAAA
i nomLeu3.chr25             C 0 I 299
s rheMac8.chr3              160666536 29 - 185818997 -AAAGTAGCATGGATGCTGCGAAGTTGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302679 29 - 192294377 -AAAGTAGCATGGATGCTGCGAAGTTGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926569 29 -  30496662 -AAAGTAGCATGGATGCTGCGAAGTTGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451442 29 +  21915920 -AAAGTAGCATGGATGCTGCGAAGTTGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952912 29 -  90373283 -AAAGTAGCATGGATGCTGTGAAGTTGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456420 29 +   7543664 -AAAGTAGCATGGATGCTGCGAAGTTGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227584 29 -  13750039 -AAAGTAGCATGGATGCTGCAAAGTTGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485604 29 +  50472720 -AAAGTATCCTGGGTGTTGCTAAGTGGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680592 29 +  13128814 -AAAGCAGCATGGGTGTTGCTAAGTGGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908927 26 -  14377064 -AAAGTAGCGTGGG---TGCTAAGCAGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140805 29 -   9889416 -AAAGTAGCATGGGTGTTGCTAAGTGGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852900 29 -  38779656 -AAAGTAGCCTGGATGTTGCTAAGTTGAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030010 30 +  39895921 ttcaGTTGCATGAGCATTCTTACATTGAAA
i canFam3.chr31             I 787 I 2
s dasNov3.JH578070            2353462 29 +   3081153 -AAAATAAGATGTGTGTTGCTAAGTTGACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I

a score=943597.000000
s hg38.chr21_GL383579v2_alt     90077 81 +    201197 TTCTATTAGTCTCCACTCTTTAGCAACCCTTTGATATATCCAACATTTTAACATCTGTTTT-AAACTAATGATCTCTATTGA
s panTro5.chr21               8708436 81 +  33445071 TTCTATTAGTCTCCACTCTTTAGCAACCCTTTGATATATCCAACATTTTAACATCTGTTTT-AAACTAATGATCTCTATTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247652 81 +  46275980 TTCTATTAGTCTCCACTCTTTAGCAACCCTTTGATATATCCAACATTTTAACATCTGTTTT-AAACTAATGATCTCTATTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230245 81 -  13858734 TTCTATTAGTCTCCACTCTTTAGCAACCCTTTGATATATCCAACATTTTAACATCTGTTTT-AAACTAATGATCTCTATTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259423 81 +  32716333 TTCTATTAGTCTCCACTCTTTAGCAATCCTTTGAGATATCCAACATTTTAACAACTGTTTT-AAACTAATGATCTCTATTGA
i nomLeu3.chr25             I 299 C 0
s rheMac8.chr3              160666565 81 - 185818997 TTCTATTAGTCTCCACTCTTTAGCAATCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAATGATCTCTATTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302708 81 - 192294377 TTCTATTAGTCTCCACTCTTTAGCAATCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAATGATCTCTATTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926598 81 -  30496662 TTCTATTAGTCTCCACTCTTTAGCAATCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAATGATCTCTATTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451471 81 +  21915920 TTCTATTAGTCTCCACTCTTTAGCAATCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAATGATCTCTATTGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19952941 81 -  90373283 TTCTATTAGTCTCCACTCTTTAGCAACCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAATGATCTCTATTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456449 81 +   7543664 TTCTATTAGTCTCCACTCTTTAGCAATCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAACGATCTCTATTGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227613 81 -  13750039 TTCTGTTAGTCTCCACTCCTTAGCAACCCTTTGACATTCCCAACATTTTAACATCTGTTTT-AGACTAATGATCTCTATTGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485633 81 +  50472720 TTTTATTAGTCTCCACCCCTTAGCAACCGTTTGATATATCCAACATTTTAACATCTGTTTT-CAACCAATGAACTCTATTGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680621 81 +  13128814 TTTTATTAGTCTCCACTCCTTAGCAACCGTTTGATATATCCAACATTTTAACATCTGTTTT-AAACTAATGAACTCTATTGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13908953 81 -  14377064 TTTTACTAGTCTCCACTCTTTAGCAACCCTTTGATATTTCCAACATTTTAACATCTGTTTT-AAACTAATGAACTCTATTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140834 81 -   9889416 TTTTATTAGTCTCCACTCTTTAGCAACCGTTTGATTCATCCAACATTTTAACATCTGTTTT-AAACTAATGAACTCTATTGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852929 67 -  38779656 CACTATTACTCTTTAC-----AGCAACCCTCTGATATTTCTGCAATTTTTACATCCACTTA-AAATTA---------ATTGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030042 78 +  39895921 GTTTA--AGTTTATATCCT--AACAGTCCTCTGATATAGTCATCAGATTTACATCTGTCTTAAAACTAATGATCCCTATTGA
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2353491 80 +   3081153 TAGTATTAGTCTACACTCTAT-GCATCCCTATGAAATACTCATCATTTTTACTTCCTTTTT-CAGCTAATAATCCCTATTGA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I

a score=42020.000000
s hg38.chr21_GL383579v2_alt     90158 7 +    201197 -ACT-GTTA
s panTro5.chr21               8708517 7 +  33445071 -ACT-GTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247733 7 +  46275980 -ACT-GTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230326 7 -  13858734 -ACT-GTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259504 7 +  32716333 -ACT-GTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666646 7 - 185818997 -ACC-ATTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302789 7 - 192294377 -ACC-ATTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926679 7 -  30496662 -ACC-ATTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451552 7 +  21915920 -ACC-ATTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953022 7 -  90373283 -ACC-ATTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456530 7 +   7543664 -ACC-ATTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227694 7 -  13750039 -ACC-ATTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485714 8 +  50472720 -ACCAATTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680702 8 +  13128814 -ACCAATTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909034 8 -  14377064 -ACCAATTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140915 8 -   9889416 -ATCAATTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24852996 8 -  38779656 -ACCCCTTA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2353571 8 +   3081153 ATCC-CCTA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e canFam3.chr31              18030120 0 +  39895921 C

a score=38143.000000
s hg38.chr21_GL383579v2_alt     90165 4 +    201197 CTGA
s panTro5.chr21               8708524 4 +  33445071 CTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247740 4 +  46275980 CTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230333 4 -  13858734 CTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259511 4 +  32716333 CTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666653 4 - 185818997 CTGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302796 4 - 192294377 CTGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926686 4 -  30496662 CTGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451559 4 +  21915920 CTGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953029 4 -  90373283 CTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456537 4 +   7543664 CTGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227701 4 -  13750039 CTGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485722 4 +  50472720 CTGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680710 4 +  13128814 CTGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909042 4 -  14377064 CTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140923 4 -   9889416 CTGA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18030120 4 +  39895921 CTCA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2353579 4 +   3081153 CTGA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e otoGar3.GL873528           24853004 0 -  38779656 C

a score=1616637.000000
s hg38.chr21_GL383579v2_alt     90169 172 +    201197 CTCttggtgcaaaaatgattgcggg-ttttgccattacttttaatggcaaaGCCAATAAA--ACAATATTGTTTGTATTTAAATAATAAATTACGATTTTTGTTTTTAAAGTTATAAAAGGCATATTCATAGTCAACATAGTACAAATTCCTGCTTTGTGGACAGTGAAGGTATT
s panTro5.chr21               8708528 172 +  33445071 CTCttggtgcaaaaatgattgcggg-ttttgccattacttttagtggcaaaGCCAATAAA--ACAATATCATTTGTATTTAAATAATAAATTACGATTTTTGTTTTTAAAGTTATAAAAGGCATATTCATAGTCAACATAGTACAAATTCCTGCTTTGTGGACAGTGAAGGTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247744 172 +  46275980 CTCttggtgcaaaaatgattgcggg-ttttgccattacttttagtggcaaaGCCAATAAA--ACAATATCGTTTGTATTTAAATAATAAATTACGATTTTTGTTTTTAAAGTTATAAAAGGCATATTCATAGTCAACATAGTACAAATTCCTGCTTTGTGGACAGTGAAGGTATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230337 171 -  13858734 CTCttggtgcaaaaatgattgcggg-ttttgccattacttttaatggcaaagacAATAAA--ACAATATTGTTTGTATTTAAATAATACATTACGATTTTTGTTTTTAAAGTTGTAAAAGGCATATTCAT-GTCAACATAGTACAAATTCCTGCTTTGTGGACAGTGAAGGTATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259515 171 +  32716333 CTCttggtgcaaaaatgattgt-gg-ttttgccattacttttaatggcaaaGCCAATAAA--ACATTATTATTTGTATTTAAATAATACATTACGATTTTTGTTTCTAAAGTTGTAAGAGGCATATTCATAGTCATCATAGTACAAATTCCTGCTTTGTGGACAGTGAAGGTATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666657 175 - 185818997 CTCttggtgcaaaaataattgcgggtttttgtcattaattttaacggcaaaGCCGATAAAATACAATATGATTTGTATTTAAATGATACATTATGATTTTTGCTTTTAAAGTTGTAAGAGGCATATTCATAGTCAACATAGTTTAAATTCCTGCTTCGTGGACAGTGAAGGTACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302800 175 - 192294377 CTCttggtgcaaaaataattgcgggtttttgtcattaattttaacggcaaaGCCGATAAAATACAATATGATTTGTATTTAAATGATACATTATGATTTTTGCTTTTAAAGTTGTAAGAGGCATATTCATAGTCAACATAGTTTAAATTCCTGCTTTGTGGACAGTGAAGGTACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926690 175 -  30496662 CTCttggtgcaaaaataattgcgggtttttgtcattaattttaacggcaaaGCCGATAAAATACAATATGATTTGTATTTAAATGATACATTATGATTTTTGCTTTTAAAGTTGTAAGAGGCATATTCATAGTCAACATAGTTTAAATTCCTGCTTTGTGGACAGTGAAGGTACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451563 175 +  21915920 CTCttggtgcaaaaataattgcgggtttttgtcattaattttaacggcaaaGCCGATAAAATACAATATGATTTGTATTTAAATGATACGTTAAGATTTTTGCTTTTAAAGTTGTAAGAGGCATATTCATAGTCAACATAGTTTAAATTCCTGCTTTGTGGACAGTGAAGGTACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953033 173 -  90373283 CTTttggtgcaaaaataattgcggatttttgtcattaattttaacggcaaaGCCGATAAAATACACTATGATTTGTATTTAAATGATACATTAAGATTTTTGCTTTTGAAGTTGTAAGAGGCATATTCATAGTCAAC--AGTTTAAATTCCTGCTTTGTGGACAGTGAAGGTACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456541 175 +   7543664 CTCttggtgcaaaaataattgcgggtttttgtcattaattttaacggcaaaGCCGATAAAATACAATATGATTTGTATTTAAATGATACGTTAAGATTTTTGCTTTTAAAGTTGTAAGAGGCATATTCATAGTCAACATAGTTTAAATTCCTGCTTTGTGGACAGTGAAGGTACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227705 175 -  13750039 CTCttggtgcaaaaatacttgctggtttttgtcattaattttaatggcaaaGTTGCTAAAATACAATATGATTTGTATTTAAATGATACATTAAGATTTTTGCTTTTAAAGTTGTAAGAGGCATATTCATAGTCAACATAGTTTAAATTCCTGCTTTGTGGACAGTGAAGGTACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485726 174 +  50472720 CTAttggtgcaaaaataattgtggg-tttttccattaattttaatgacaaaGCCAATACAATACAATATGATTTGTATTTAAAAGATACATTAAGATTTTTGTTTTTAAAATTGTAAGATGAGTATTCATAGTCAACAAAGTTCAAATTGCTGCTTTGTGGACAGTGAAGGTATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680714 174 +  13128814 CTAttggtgcaaaaataattgtggg-ttttgccattacttttaattgcaaaGCCAATAAAATGCAATATGATTTGTATTTAAATGATACATTAAGATTTTTGTTTTTAAAATTGTAAGAGGAGTATTCGTAGTCAACAAAGTTCAAATTCCTGCTTTGTGGACAGTGAAGGTTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909046 174 -  14377064 CCAttggtgcaaaaataattgtggg-ttttgccattacttttaatgacaaaGCCAATAAAATACAATATGATTTGTATTTAAATGATACATTAAGATTTTTGTTTTTAAAATTCTAAGAGGTGTATTCATAGTCAACAAAGTTCAAATTCCTGCTTTGTGGACAGTGAAGGTATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9140927 174 -   9889416 CTAttggtgcaaaaataattgtggg-ttttgccactacttttaatgacaaaGCCAATAAAATACAATATGATTTGTATTTAAATGACACATTAAGATTTTTGTTTTTAAAATTGTAAGAGGCGTATTTATAGTCAACAAAGTTCAAATTCCTGCTTTGTGGACAGTGAAGGTATT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18030124  97 +  39895921 TTTGTGG----------------------------------------------------AATACAATACCATGTG--------------------------GCATTCATAGCTGTAAAGGACACATTAATGATTAACATAATTTGAATTCCTGCTTTGGTGACAGTGAACTTATT
i canFam3.chr31             C 0 T 89
e micMur3.chr31              23679120 665 +  47401472 I
e dasNov3.JH578070            2353583   0 +   3081153 C
e otoGar3.GL873528           24853004   0 -  38779656 C

a score=32658.000000
s hg38.chr21_GL383579v2_alt     90341 4 +    201197 TCAT
s panTro5.chr21               8708700 4 +  33445071 TCAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247916 4 +  46275980 TCAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230508 4 -  13858734 TCAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259686 4 +  32716333 TCAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666832 4 - 185818997 TCAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302975 4 - 192294377 TCAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926865 4 -  30496662 TCAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451738 4 +  21915920 TCAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953206 4 -  90373283 TCAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456716 4 +   7543664 TCAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227880 4 -  13750039 TCAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485900 4 +  50472720 TCAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680888 4 +  13128814 CCAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909220 4 -  14377064 TCAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141101 4 -   9889416 TCAA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e dasNov3.JH578070            2353583 0 +   3081153 C
e canFam3.chr31              18030221 89 +  39895921 T
e otoGar3.GL873528           24853004 0 -  38779656 C

a score=37764.000000
s hg38.chr21_GL383579v2_alt     90345 4 +    201197 TATG
s panTro5.chr21               8708704 4 +  33445071 TATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247920 4 +  46275980 TATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230512 4 -  13858734 TATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259690 4 +  32716333 TATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666836 4 - 185818997 TATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302979 4 - 192294377 TATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926869 4 -  30496662 TATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451742 4 +  21915920 TATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953210 4 -  90373283 TATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456720 4 +   7543664 TATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227884 4 -  13750039 TATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485904 4 +  50472720 TATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680892 4 +  13128814 TATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909224 4 -  14377064 TATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141105 4 -   9889416 TATG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24853004 4 -  38779656 TCTA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I
e dasNov3.JH578070            2353583 0 +   3081153 C
e canFam3.chr31              18030221 89 +  39895921 T

a score=40308.000000
s hg38.chr21_GL383579v2_alt     90349 3 +    201197 ATG
s panTro5.chr21               8708708 3 +  33445071 ATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247924 3 +  46275980 ATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230516 3 -  13858734 ATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259694 3 +  32716333 ATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666840 3 - 185818997 ATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302983 3 - 192294377 ATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926873 3 -  30496662 ATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451746 3 +  21915920 ATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953214 3 -  90373283 ATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456724 3 +   7543664 ATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227888 3 -  13750039 ATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485908 3 +  50472720 ATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680896 3 +  13128814 ATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909228 3 -  14377064 ATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141109 3 -   9889416 ATG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24853008 3 -  38779656 ATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030132 3 +  39895921 ATA
i canFam3.chr31             T 89 C 0
s dasNov3.JH578070            2353583 3 +   3081153 ATA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23679120 665 +  47401472 I

a score=4767606.000000
s hg38.chr21_GL383579v2_alt     90352 362 +    201197 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACATAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTATATCCAGCTGGGCAGACTCAACTGCCAAGGCACAAAGAAACTCA-TTTGGTAAGTGA-------ACCCTGGCCGAGATAGAAAAAAGAACTTCTTGGTTCTCATTTTCCCCACCCTATGCATGAATAGTTGACCAACGTCTATATAGAGTCTTCAAAATTATTGCAGCT---ATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCACTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
s panTro5.chr21               8708711 362 +  33445071 CAATACGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACATAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACTCAACTGCCAAGGCACAAAGAAACTCA-TTTGGTAAGTGA-------ACCCTGGCTGAGATAGAAAAAAGAACTTCTTGGTTCTCATTTTCCCCACCCTATGCATGAATAGTTGACCAACGTCTATATAGAGTCTTCAAAATTATTGCAGCT---ATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCACTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22247927 362 +  46275980 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACATAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACTCAACTGCCAAGGCACAAAGAAACTCA-TTTGGTAAGTGA-------ACCCTGGCTGAGATAGAAAAAAGAACTTCTTGGTTCTCATTTTCCCCACCCTATGCATGAATAGTTGACCAACGTCTATATAGAGTCTTCAGAATTATTGCAGCT---ATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCACTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230519 361 -  13858734 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACATAATTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAACTATCTACTTATTTACATCCAGCTGGGCAGACTCAACTGCCAAGGCACAAAGAAACTCA-TTTAGTAAGTGA-------ACCCTGGCCGAGATAG-AAAAAGAACTTCTTGGTTCTCATTTTCCCCACCCTATGCATGAATAGTTGACCAACGTCTATATAGAGTCTTCAAAATTATTGCAGCT---ATCATTTC---ACAAATTGCTGTTTTCCTGACAGCAAAGACTCACTCAGTTTTCTGA-------------------AATTTTGGAGAGACTCTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9259697 361 +  32716333 CAATATAGTTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACATAGTTTAAATCCCTGCTTAGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACTCAACTGCCAAGGCACAAAGAAACTCA-TTTAGTAAGTGA-------ACCCTGGCCGAGTTAG-AAAAAGAACTTCTTGGTTCTCATTTTCTCCACCCTATGCATGAATAGTTGACCAACGTCTATATAGAGTCTTCAAAATTATTGCAGCT---ATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160666843 364 - 185818997 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCTATGCATGAATAGTTGACCGACATCTATGTAGAGTCTTCAGAATTATTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGGCTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167302986 364 - 192294377 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCTATGCATGAATAGTTGACCGACATCTATGTAGAGTCTTCAGAATTATTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4926876 364 -  30496662 CAATATGATTTTGTAATTAAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCTATGCATGAATAGTTGACCGACATCTATGTAGAGTCTTCAGAATTATTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13451749 362 +  21915920 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCTATGCATGAATAGTTGACCCACATCTATGTAGAGTCTTCAGAATTATTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCATTCAGTCTTCTGA-------------------AATTTTGAAGAGATTC--T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953217 364 -  90373283 CAATATGATTTTGTATTTTAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCTATGCATGAATAGTTGACCGACATCTATGTAGAGTCTTCAGAATTATTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3456727 362 +   7543664 CAATATGATTTTGTATTTAAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCTATGCATGAATAGTTGACCCACATCTATGTAGAGTCTTCAGAATTATTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCATTCAGTCTTCTGA-------------------AATTTTGAAGAGATTC--T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5227891 364 -  13750039 CAATATGATTTTGTATGTAAAGTTTTAAGGGGCACATTCATAGTTAACACAGTTTAAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCCGTTGATGAGATCTCTCTGGCTCAACTATCCACTTAATTACATCCAGCTGGGCAGACACAACTGCTCAGGCACAAAGAAACCCA-TTTAGTAAGTGA-------ACCCTGGCCCAGTTAG-AAGAAGCACTTCTTGGTTCCCATTTTCCCCACCCCATGCATGAATAGTTGACCGACATCTATGTAGAGTCTTCAGAATTACTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAGCAAAGACTCACTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26485911 361 +  50472720 TAATATGACATTTTATTTAAAGTTATAAGGAGCACATTTGTAGTTAACATAGTTTTAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAATTATCTACTTAATTACATCCAGCTAGGCAGACACAACTGCTAAGGCACAAGGAAACCCA-TTTAGTAAGTGA-------ACCCTGACCCATTTGG-AAGATGCGCTTCTTGGTTCCCATTTT-CCCACCCTGTGCATGAATAGTTGACCGGCTTCTACATACAGTCTCTAAAATTCTTGCAGTTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAAC--AGATTCATTCAGGTTTCTGA-------------------AATTTTGAAGAGACTCTTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8680899 362 +  13128814 CAATATGATGTTTTATTTAAAGTTTTAAGGAGCACATTTGTAGTTAACAGAGTTTTAATCCCTGCTTTGTGGACAGTGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAATTATCTACTTAATTACATCCAGCTGGGGAGACACAACTGCTAAGGCACAAGGAAACCCA-TTTAGTAAGTGA-------ACCCTGACCCATTTAG-AAGAAGCTCTTCTTGGTTCCCATTTTCCCCAACCTGTGCATGAATAGTTGACCAGCTTCTATGTACAGTCTTTAAATTTCTTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAAC--AGACTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909231 362 -  14377064 CAATATGATGTTTTATTTAAAGTTATAAGGAGCACATTTGTAGTTAACATAGTTTTAATCCCTGCTTTGTGGACAATGAAGG-TATTTCTGTTGATGAGATCTCTCTGGCTCAATTATCTACTTAATTACATCCAGTTGGGCAGACACAACTGCTAAGGCACAAGGAAACCCA-TTTTGTAAGTGA-------ACCCTGACCCATTTAG-AAGAAGCGCTTCTTGGTTCCCATTTTCCCCAAACTGTGCATGAATAGTTGACCAGCTTCTATGTACAGTCTTTAAAATTCTTGCAGCTATCCTCATTTC---ACAAATTGCTCTTTTCCTGACAAC--AGACTCATTCAGTTTTCCGA-------------------AATTTTGAAGAGACTCTTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141112 362 -   9889416 CAATATGATGTTTTATTTAAAGTTATAAGGAGCACATTTGTAGTTAACATAGTTTTAATCCCTGCTTTGTGAACAGTGAAGG-TATTTCTGTTGATGAGAGCTCTCTGGCTCAATTATCTACTTAATTACATCCAGCTGGGCAGACACAACTGCTAAGGCACAAGGAAACCCA-TTTAGTAAGTGA-------ACCCTGACCCATTTAG-AAGAAGCGCTTCTTGGTTCCCATTTTCCCCAACCTGTGCATGAATAGTTGACCAGCTTTTATGTACAGTCTTTAAAATTCTTGCAGCTATCATCATTTC---ACAAATTGCTCTTTTCCTGACAAC--AGACTCATTCAGTTTTCTGA-------------------AATTTTGAAGAGACTCTTC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23679785 371 +  47401472 CAATATGATTTGATATTTATAGTTTTAAGAGACACATGAAAAGTTATCATAATTCACATCCCTGCTTTGTGGACAGTGAACC-TATTGCTGTGGATGAGATCTCTCTGGCCCAATTGTCCACTTCATTGCATCCACCTGAGCAGAGACAACAGCTAAAGCACAAACAAGCTCT-CTTAGTAAATGAGCCCTTGACCCTGAGCGAGGTAG-AAACAGCACATCTTGGTTCCCATTTCTGCCACCCTATGCATGGATAGTTGACTGACTTCTACTTAGAGTTTTAAAAATTGTTATAGCTATCATTGCTTC---ACAAATTTCTCTTTTTCCGACAGCAAAGACAAGTTCAGTTCTCTGC-------------------AAGTTGGCAGAGATTCTTC
i micMur3.chr31             I 665 C 0
s otoGar3.GL873528           24853011 372 -  38779656 CAATATGTTTTGATATTTATAGTTTTCAAAGACACATTAAAAGTTCATGTGATTCAAATCCCTGCTTTGCGGATGGTGAACCTTCTTTCTGTCGATGAGATGTATCTGGCCCATTTGTGCATTTAATTATATCCACCTGAGTGGACACAACTGCTAAGGCACAAAGAAACCCA-CTTAGTAAGGGAAGCCTTGACCCTGAGCCAGGGAG-AAGTCGCATGTCTTGGTTCCTGCTTCTGCCACCCTATGCGCAGAGAGTTGACCGACTTCTACTTAGAGTCTTTAGAATTGTTACAGCTATCATCACTTC---ACAAATTGCTCTTTTTCCGACAGCAAAGACAAGTTCAGTTTTGTGC-------------------AAGTTTGCAGAGACTCTTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030135 390 +  39895921 CAATACCATGTGGCATTCATAGCTGTAAAGGACACATTAATGATTAACATAATTTGAATTCCTGCTTTGGTGACAGTGAACT-TATTGCTGTTGATGATACTTCTCTGGCCCAATTATCCACTTAATTGCATTCAGCTGGGAAGACATGCATGCTATGGCACAGCAGAGTCCACTTTGGTAGGTGAAACCTTGACCCCGAGGCAGTTAG-AGGAAGTACATCTTGGTTCCCTTTTCTATCATTCTATGCATGGATAGGTGGACGTCAACCACTTCGAGGTCTGGAAATTGTTGT-GCTATCATCACCCC---ACAGGTTGCTCTTTTTCTGACACGGGTTGCTCTTTTTGTTTTCCAAATTACTTTTGGTTTTCATCAAGTTTGAGGAGGCTCCTC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2353586 362 +   3081153 CAACATCATTTCGCATTTATAGTTTTTAGAGACACATTAACGGTTAATGTAATT-AAATCCCTGCTCTGGGGATATTGAAGC-TATTGCTGTTGATGAGAGACCTCTAGCCTAATTATCTACTTAATTCTACTCAGCTGGGATGACATGCCCACTACGACACAAAGTACCCCA-CTTGGTAAGTGAATTCCTGACCCTGAATCACCTGG-AAGAACCATGTTTT-TTTCCCATTCCCATCAT--------TAGGTAGTTGGCCATC-TTTACTTAGAGTCTT-AAAGTTGTTTCAGCTTTCGTAACTGTAAAACAAATTGCTCTTTTTCCAACAGCTAATACATGTTCAGTTTTCTGA-------------------AAAAATGCAGACTCCCTTT
i dasNov3.JH578070          C 0 I 399

a score=2526683.000000
s hg38.chr21_GL383579v2_alt     90714 196 +    201197 ATGGGAATACAAATGGTGGTTGTCAGAG---------------------AAAAAAAAAAGC-GTGCTTTTTCATCAATCTGACTCAATAGAAAATGAAGTCTACCGTAAAGTTGTGCTTCTGTCATTCAAGGTCAAGAAACAGTTAAGTAACATCACTCAAAGGATTCTGAAGCTAGTC-----GTCCC---TATTCTTGTTCCAGAATCTATGAGATTGCTTCTT
s panTro5.chr21               8709073 196 +  33445071 ACGGGAATACAAATGGTGGTTGTCAGAG---------------------AAAAAAAAAAGC-GTGCTTTTTCATCATTCTGACTCAATAGAAAATGAAGTCTACCGTAAAGTTGTGCTTCTGTCATTCAAGGTCAAGAAACAGTTAAGTAACATCACTCAAAGGATTCTGAAGCTAGTC-----GTCCC---TATTCTTGTTCCAGAATCTATGAGATTGCTTCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248289 196 +  46275980 ACGGGAATACAAATGGTGGTTGTCAGAG---------------------AAAAAAAAAAGC-GTGCTTTTTCATCATTCTGACTCAATAGAAAATGAAGTCTACCGTAAAGTTGTGCTTCTGTCATTCAAGGTCAAGAAACAGTTAAGTAACATCACTCAAAGGATTCTGAAGCTAGTC-----GTCCC---TATTCTTGTTCCAGAATCTATGAGATTGCTTCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8230880 196 -  13858734 ACGGGAATACAAATGGTGGTTGTCAGAG---------------------AAAAAAAAAAGC-GTGCTTTTTCATCAATCTGACTCAATAGAAAATGAAGTCTACCGTAAAGTTGTGCTTCTGTCATTCAAGGTCAAGAAACAGTTAAGTAACATCACTCAAAGGATTCTGAAGCTAGTC-----GTCCC---TATTTTTGTTCCAGAATCTATGAGATTGCTTCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260058 198 +  32716333 ATGGGAATACAAATGGTGGTTGTCAGAG-----AA--------------AAAAAAAAAAGC-GTGCTTTTTCATCAATCTGACTCAATAGAAAATGAAGTCTACCATAAAATTGTGCTTCTGTCATTCAAGGTCAAGAAACAGTTAAGTAACGTTACCCAAAGGATTCTGAAGCTAGTC-----GTCCC---TATCCTTGTTCCAGAATCTATGAGATTGCTTCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667207 197 - 185818997 ACTGGGATATAAATGGTGGTTGTCAGAG------A--------------AAAAAAAAAAGC-ATGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----ATCCC---TACCCTTGTTCCAGAATCTATGAGATTGCTTCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303350 197 - 192294377 ACTGGGATATAAATGGTGGTTGTCAGAG------A--------------AAAAAAAAAAGC-ATGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----ATCCC---TAGCCTTGTTCCAGAATCTATGAGATTGCTTCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927240 198 -  30496662 ACTGGGATATAAATGGTGGTTGTCAGAG-----AA--------------AAAAAAAAAAGC-ATGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----ATCCC---TAGCCTTGTTCCAGAATCTATGAGATTGCTTCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452111 196 +  21915920 ACTGGGATATAAATGGTGGTTGTCAGAG---------------------AACAAAAAAAGC-ATGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----ATCCC---TACCCTTGTTCCAGAATCTATGAGATTGCTTCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953581 203 -  90373283 ACTGGGATATAAATGGTGGTTGTCAGAGaaaaaaa--------------aaaaaaaaaaaC-ATGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAACTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----ATCCC---TACCCTTGTTCCAGAATCTATGAGATTGCTTCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457089 175 +   7543664 ACTGGGATATAAATGGTGGTTGTCAGAG---------------------AACAAAAAAAGC-ATGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----A------------------------CTATGAGATTGCTTCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228255 195 -  13750039 ACTGGGATATAAATGGTGGTTGTCAGAG----------------------AAAAAAAAAGC-ATGCTTTTTCATCAGTCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCAGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTCAAAAGATTCTGAAGCTAGTC-----ATCCC---TACCCTTGTTCCAGTATCTATGAGATTGCTTCTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486272 193 +  50472720 ACTGGGATATAAATGGTAGTTGTCAGAG------A---------AAAAAAAAAAAAAAAGCTTTGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCTGTCATTCAAGGTCAAGAACTAGTTAAGTAACATCACCC-AAGGATTCCGAAGATAGTC-----TTCCC---TATCCTTGTTTCAGAATCAATGAAA---------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681261 211 +  13128814 ACTGGGATATAAATGGCAGTTGTCagag------agagagagagagagaaaaaaaaaaagCCTTGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCTGTCGTTCAAGGTCAAGAAATAGTTAAGTAACGTCACTC-AAGGATTCTGAAGCTAGTC-----TTCCC---TATCCTTGTTTCGGAATCAATGAGATTGCTTCTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909593 194 -  14377064 ACTGGGATATAAATGGTAGTTGCCAGAG------G----------------AAAAAAAAGC-TTGCTTTTTCATCAATCAGGCTCAATAGAAAATGAAGTCTACTGTGAAATTGTGCTTCTGTCATTCAAGGTCAAGAAATAGTTAAGTAACATCACTC-AAGGATTCTGAAGCTAGTC-----TTCCC---TATCCTTGTTTCAGAATCAATGAGTTTGCTTCTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141474 197 -   9889416 ACTGGGATATAAATGGTAGTTGTCAGAG------A--------------AAAAAAAAAAGCTTTGCTTTTTCATCAATCAGACTCAATAGAAAATGAAGTCTACTGTAAAATTGTGCTTCTGTCATTCAAGGTCAAGAAACAGTTAAGTAACATCACTC-AAGGATTCTGAAGCTAGTC-----TTCCC---TATCCTTGTTTCAGAATCAATGAGATTGCTTCTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23680156 201 +  47401472 ACTGGAATATAAAGTGGGGTTGTCAGAG-----GA--------------AAGAAAAAAAGC-ATGCTTTTCCATCAATCAGATTCAGTAGAAAATGAAGTCTACTGTAAAACTGTGCTTCTGTCATTCAAGGTCATGGGATAGTTAAGTAACATCACTCAAAGGATTCTGAAGCTAGTC-----TTCTCCTTTATCCCTGTTCAAGAATCTATGAGATTGCttctt
i micMur3.chr31             C 0 I 211
s otoGar3.GL873528           24853383 201 -  38779656 ACTGGAATATAAAGTGCAGTTGTCAGAG-----------------------GGGAAAAAAC-ACGCTTTTCCATCAGTTGGACTGAATAGAAAATGAAGTCTACTGAAAAACTGTGCTCCTGTCATCCAAGGTCACAGGACAGTTAAGTAACATCACTCATAGGATTGTGAAGCTTGTCTTCT-TTCTCCTGAATCCCTGCTCCAGAATCTGGGAGGTTGCTTCTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030525 183 +  39895921 ACTGGAATATAAAGTGGAGTTGTCAATG----GGG--------------ACAGGTAGAAGC-ATGTTTTTTCATCAATCAGATTCAACCGAAAATGAAGTCTACTGTGAAACGGTGCTTTTGTCAATCAAGGTC---------------AACATCATTGAAAGAGTTCTGAAGCTAGTC-----TATGG---T-TCCCTGTTCCAGAATCTAGAAGACTGCGTGTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2354347 199 +   3081153 ACTGGAATACAAAGTG-GATTCTCAGAG---------------------AGCTATAAAAGC-ATGCTTTTCCATCAATCAGGTT-AATAGGAAATGAAATCTACTGTAAAATTGTGCTTCTGTCACTCAAGGTCAAGGGGTGCTTAAGTAACATCACTCAAAGAGATCTGACGCAAATTTTCTATTCTC---TATTTCTGCTCCAAAATTGACAACCTTGTTTCTT
i dasNov3.JH578070          I 399 C 0

a score=632653.000000
s hg38.chr21_GL383579v2_alt     90910 66 +    201197 CCTTTTTATGCCCTTTACCAAGGG-----GGAGTAAAGGAATTTTATAAGAGGGAGATTTTATTGCATAAT
s panTro5.chr21               8709269 66 +  33445071 CCTTTTTATGCCTTTTACCAAGAG-----GGAGTAAAGCAATTTTATAAGAGGGAGATTTTATTGCATAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248485 66 +  46275980 CCTTTTTATGCCTTTTACCAAGAG-----GGAGTAAAGCAATTTTATAAGAGGGAGATTTTATTGCATAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231076 66 -  13858734 CCTTTTTATGCCCTTTACCAAGGG-----GGAGTAAAGCAATTTTATAAGAGGGAGATTTTATTGCATAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260256 66 +  32716333 CCTTTTTATGCCCTTTACCAAGGG-----GGAGTAAAGCCATTTTGTAAGAGGGAGATTTTATTGCATAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667404 66 - 185818997 CCCTTTTATGCCCTTTACCAAAGG-----GGAGTAAAACAATTTTATAAGAGGGAGGTTTTATTGCATAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303547 66 - 192294377 CCCTTTTATGCCCTTTACCAAGGG-----GGAGTAAAACAATTTTATAAGAGGGAGGTTTTATTGCATAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927438 66 -  30496662 CCCTTTTATGCCCTTTACCAAGGG-----GGAGTAAAACAATTTTATAAGAGGGAGGTTTTATTGCATAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452307 66 +  21915920 CCCTTTTATGCCCTTTACCAAGGG-----GGAGTAAAACAATTTTATAAGAGGGAGATTTTATTGCATAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953784 66 -  90373283 CCCTTTTATGCCCTTTACCAAGGG-----GGAGTAAAACAATTTTATAAGAGGGAGATTTTATTGCATAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457264 66 +   7543664 CCCTTTTATGCCCTTTACCAAGGG-----GGAGTAAAACAATTTTATAAGAGGGAGATTTTATTGCATAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228450 66 -  13750039 CCCTTTTATGCCCTTTACCAAGGG-----GGAGTAAAACAATTTTATAAGAGGGAGATTTTATTGCATAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486465 23 +  50472720 ------------------------------------------------AGAGGGAAATGTTATTACATAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681472 65 +  13128814 CCTTTTAGTGCCCTTTACCTAGAG-----GGAGTAAAACAACTTTAT-AAGGGGAAATTTTATTACAAAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909787 66 -  14377064 CCTTTTAGTGCCCTTTACCTAGAG-----GGAGTAAAACAACTTTATAAGAGGGAAATTTTATTACAAAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141671 66 -   9889416 CCTTTTAGTGCCCTTTACCTAGAG-----GGAGTAAAACAACTTTATAAGAGGGAAATTTTATTACATGAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24853584 65 -  38779656 -CTTTT-----CCTTTACCTAGAGGAATAGGAATAAAACAACTTTGTACTAGGAAGATTTTATTAACTAAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030708 63 +  39895921 -CCTTTAACACCCTTCCCCTAGAGGAGTAGGAATAAAATGACTTTGGAAAAAGGATAGTTTAAG-------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2354546 52 +   3081153 -CCTTTGATTCCCTCTATTAAGAA-----GGAGTAAAA-ACTTTTGT------------TTATTACTTAAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680357 211 +  47401472 I

a score=444928.000000
s hg38.chr21_GL383579v2_alt     90976 41 +    201197 AGAAGAAAATATATTT------------------------------TTATGCCAGAGTGTTTCTATCCCTA-
s panTro5.chr21               8709335 41 +  33445071 AGAAGAAAATATATTT------------------------------TTATGCCAGAGTGTTTCTATCCCTA-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248551 41 +  46275980 AGAAGAAAATATATTT------------------------------TTATGCCAGAGTGTTTCTATCCCTA-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231142 41 -  13858734 AGAAGAAAATATATTT------------------------------TTATGCCAGAGTGTTTCTATCCCTA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260322 41 +  32716333 AGAAGAAAATACATTT------------------------------TTATGCCAGAGTGTTTCTATCCCTA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667470 41 - 185818997 AGAAAATAAAATATTT------------------------------TTATGCCAGAGTGTTTCTATCTCTA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303613 41 - 192294377 AGAAAAAAAAATATTT------------------------------TTATGCCAGAGTGTTTCTATCTCTA-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927504 41 -  30496662 AGAAAAAAAAATATTT------------------------------TTATGCCAGAGTGTTTCTATCTCTA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452373 40 +  21915920 AGAAAA-AATATATTT------------------------------TTATGCCAGCATGTTTCTATCTCTA-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953850 41 -  90373283 AGAAAAAAAAATATTT------------------------------TTATGCCAGAGTGTTTCTATCTCTA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457330 41 +   7543664 AGAAAAAAATATATTT------------------------------TTATGCCAGCATGTTTCTATCTCTA-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228516 41 -  13750039 AGAAGAAAATATATTT------------------------------TTATGCCAGAGTGTTTCTATCTCTA-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486488 71 +  50472720 AGAAGAAAATATGTTTATTTATCACATAATAGAAGAAAAAACCTTCTTATGCCAGACTGTTTCTATTCCTA-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681537 71 +  13128814 AGAAGAAAATATATTTATTCATCACATAATAGAAGTAAAAACCTTCTTATGCCAGACTGTTTCTATTCCTA-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909853 71 -  14377064 AGAAGAAAATATGTTTATTTATCATATAATAGAAGAAAAAACTTTCTTATGTCAGACTGTTTCTCTTCCTA-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141737 71 -   9889416 AGAAGAAAATATCTTTATTTATCACATAATAGAAGAAAAAACCTTCTTATGCCAGACTGTTTCTATTCCTA-
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23680568 41 +  47401472 AGAAGAAAACACATTT------------------------------TTATGCCAGAATGTTTCTATTCCTA-
i micMur3.chr31             I 211 I 8438
s otoGar3.GL873528           24853649 40 -  38779656 AGAAGAAAACATA-TT------------------------------TTATGCTACAGTGTTTGCATTCCTT-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030771 39 +  39895921 AAAAGAAGGTAAATTT------------------------------TCATGCCA-AGTG-TTCTGTTCCTA-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2354598 42 +   3081153 AGAAAAAAAATTATTT------------------------------TCATTCTAGATTGTTACTCTTCCATT
i dasNov3.JH578070          C 0 C 0

a score=202117.000000
s hg38.chr21_GL383579v2_alt     91017 22 +    201197 ATGTGGTCCCCAGGtttcattt
s panTro5.chr21               8709376 22 +  33445071 ATGTGGTCCCCAGGtttcattt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248592 22 +  46275980 ATGTGGTCCCCAGGtttcattt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231183 22 -  13858734 ATGTGGTCCCCAGGtttcattt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260363 22 +  32716333 ATGTGGTCCCCAGGTTTCattt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667511 22 - 185818997 ATGTGGTCCCCTGGTTTCATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303654 22 - 192294377 ATGTGGTCCCCTGGTTTCATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927545 22 -  30496662 ATGTGGTCCCCTGGTTTCATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452413 22 +  21915920 ATGTGGTCCCCTGGTTTCATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953891 22 -  90373283 ATGTGGTCCCCTGGTTTCATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457371 22 +   7543664 ATGTGGTCCCCTGGTTTCATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228557 22 -  13750039 ATGTGGTCCCCTGGCTTCATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486559 21 +  50472720 ACATGGTTGTTAGG-TTTATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681608 21 +  13128814 ACATGGTCTTCAGG-TTCATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909924 21 -  14377064 ACATGGTCTTCAGG-TTCATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141808 21 -   9889416 ACATGGTCTTCAGG-TTCATTT
i aotNan1.NW_018487195v1    C 0 I 25
s otoGar3.GL873528           24853689 22 -  38779656 GATTAGCCTGCGGGTTTCATTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030810 22 +  39895921 CCTTGGCCTCTAGTTTTCAGTG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2354640 22 +   3081153 GTTTGGCTTCCAGTTTTGTTTT
i dasNov3.JH578070          C 0 I 3
e micMur3.chr31              23680609 8438 +  47401472 I

a score=198678.000000
s hg38.chr21_GL383579v2_alt     91039 28 +    201197 accttcgactccacttgattttactctg
s panTro5.chr21               8709398 28 +  33445071 accttcgactccacttgattttactctg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248614 28 +  46275980 accttcgactccacttgattttactctg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231205 28 -  13858734 accttcgactccacttgattttactctg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260385 28 +  32716333 accttctactccacttgattttactctg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667533 28 - 185818997 ACATTCTACTCCACTTGATTTTactctg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303676 28 - 192294377 ACATTCTACTCCACTTGATTTTactctg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927567 28 -  30496662 ACATTCTACTCCACTTGATTTTactctg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452435 28 +  21915920 ACATTCTACTCCACTTGATTTTactctg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953913 28 -  90373283 ACATTCTACTTCACTTGATTTTACTCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457393 28 +   7543664 ACATTCTACTCCACTTGATTTTactctg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228579 28 -  13750039 ACATTCTACTCCACTTGATTTTactctg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486580 28 +  50472720 TCCTTCATAGGCAAATGATTTTACTCTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681629 28 +  13128814 GCCTTCACAGGCAAATGATTTTACTCTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909945 28 -  14377064 GCCTTCATAGGCAAATGATTTTACTCTG
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24853711 25 -  38779656 ---GCCAGGGTTTCTGGACTTCTCTCTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030832 23 +  39895921 ---CCTATCATCCCTTAATTTCACTG--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2354665 24 +   3081153 CCCTTAGATtccac----ttccactatg
i dasNov3.JH578070          I 3 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e aotNan1.NW_018487195v1      9141829 25 -   9889416 I

a score=558882.000000
s hg38.chr21_GL383579v2_alt     91067 50 +    201197 tactttcttacactatgctctgtgctctggaaccctggatttcatattct
s panTro5.chr21               8709426 50 +  33445071 tactttcttacactatgctctgtgctctggaaccctggatttcatattct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248642 50 +  46275980 tactttcttacactatgctctgtgctctggaaccctggatttcatattct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231233 50 -  13858734 tactttcttacactatgctctgtgctctggaaccctggctttcatattct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260413 50 +  32716333 tactttcttccactatgatctgtgttctggaaccctggctttcatattct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667561 50 - 185818997 tactttcttccactatgctctgtgctctggaaccatgatttttatattct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303704 50 - 192294377 tactttcttccactatgctctgtgctctggaaccatgatttttatattct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927595 50 -  30496662 tactttcttccactatgctctgtgctctggaaccatgatttttatattct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452463 50 +  21915920 tactttcttccactatgctctgtgctctggaaccatgatttttatattct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953941 50 -  90373283 TACTTTCTTCCACTATGCTCTGTGCTCTGGAACCATGATTTTTATATTCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457421 50 +   7543664 tactttcttccactatgctctgtgctctggaaccatgatttttatattct
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228607 50 -  13750039 tactttcttccactatgctctgtgctctggaaccatgatttttatattct
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486608 50 +  50472720 TACTTTCTTCCACTCTGCTCTGTATTACGGAACCCTGACTTTTATTTTCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681657 50 +  13128814 TACTTTCTTCCACTCTGCTTTGTATTACGGAAACCAGACTTTTATTTTCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13909973 50 -  14377064 TACTTTCTTCCACTCTGCTCTGTATTATGGAACCCTGAGTTTTATTTTCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141854 50 -   9889416 tactttcttccattctgctctgtattacggaacactgacttttattttct
i aotNan1.NW_018487195v1    I 25 C 0
s otoGar3.GL873528           24853736 48 -  38779656 TGGTCTCTTTCACTCTGTTTTG--CTCTGAGATCCTGACTTTTATGATCT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030855 43 +  39895921 -----TAATCCACTCTGTTCTGTGGTCTGGGGCCCTGATTTTTAT--TCT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2354689 50 +   3081153 cactctcctccactctgctctgtgctctgggaatctgacttccatatttt
i dasNov3.JH578070          C 0 I 3
e micMur3.chr31              23680609 8438 +  47401472 I

a score=10028.000000
s hg38.chr21_GL383579v2_alt     91117 1 +    201197 a
s panTro5.chr21               8709476 1 +  33445071 a
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248692 1 +  46275980 a
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231283 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260463 1 +  32716333 a
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667611 1 - 185818997 a
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303754 1 - 192294377 a
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927645 1 -  30496662 a
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452513 1 +  21915920 a
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953991 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457471 1 +   7543664 a
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228657 1 -  13750039 a
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486658 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681707 1 +  13128814 A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13910023 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141904 1 -   9889416 a
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24853784 1 -  38779656 G
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18030898 1 +  39895921 A
i canFam3.chr31             C 0 I 800
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2354739 3 +   3081153 I

a score=21472.000000
s hg38.chr21_GL383579v2_alt     91118 2 +    201197 ta
s panTro5.chr21               8709477 2 +  33445071 ta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248693 2 +  46275980 ta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231284 2 -  13858734 ta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260464 2 +  32716333 ta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667612 2 - 185818997 ta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303755 2 - 192294377 ta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927646 2 -  30496662 ta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452514 2 +  21915920 ta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953992 2 -  90373283 TA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457472 2 +   7543664 ta
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228658 2 -  13750039 ta
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486659 2 +  50472720 TA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8681708 2 +  13128814 TA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13910024 2 -  14377064 TA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141905 2 -   9889416 ta
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24853785 2 -  38779656 TC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2354739 3 +   3081153 I
e canFam3.chr31              18030899 800 +  39895921 I

a score=1668761.000000
s hg38.chr21_GL383579v2_alt     91120 161 +    201197 tgggttattgtatcctctggcttctggttagatacagctgtgggagtgaaaattagggcattagcagaagaagccatg-gagggtgggtattcggtgctggctacatttaagacaggcaagaggtaga--gtgtctggatttctccatggaagccacagtgcct
s panTro5.chr21               8709479 161 +  33445071 tgggttattgtatcctctggcttctggttagatacagctgtgggagtgaaaattagggcattagcagaagaagccatg-gaggttgggtattcggtgctggctacatttaagacgggcaagaggtaga--gtgtttggatttctccatggaagccacagtgcct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248695 161 +  46275980 tgggttattgtatcctctggcttctggttagatacagctgtgggagtgaaaattagggcattagcagaagaagccatg-gaggttgggtattcggtgctggctacatttaagacgggcaagaggtaga--gtgtttggatttctccatggaagccacagtgcct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231286 161 -  13858734 tgagttattgtatcctctggcttctggttagatacagctgtgggagtgaaaattagggcattagcagaagaagccatg-gagggtgggtattcggtgctggctacatttaagatgggcaagaggtaga--gtgtctggatttctccatggaagccacagtgcct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260466 161 +  32716333 tgggttattgtgtcctctggcttctggttagatgcagctgtaggagtgaaaattagggcattagcagaagaagccatg-gagggtgggtattcggtgctggctacatttaagacgagcaagaggtaga--gtgtctggatttctccatggaagccacagtgcct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667614 157 - 185818997 tgggttattgtatcctctggcttctggttagatacaac----cgagtgaaaatgagggcattagcagaagaagccatg-gagggtgggTATTCGGTGCTGGCTATATTTAAGATGGGTAAGAGGTAGA--GTGTCTGGATTTCTCCGTGGAAGTCACAGTGCCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303757 157 - 192294377 tgggttattgtatcctctggcttctggttagatacaac----cgagtgaaaatgagggcattagcagaagaagccatg-gagggtgggTATTCGGTGCTGGCTATATTTAAGATGGGTAAGAGGTAGA--GTGTCTGGATTTCTCCGTGGAAGTCACAGTGCCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927648 157 -  30496662 tgggttattgtatcctctggcttctggttagatacaac----cgagtgaaaatgagggcattagcagaagaagccatg-gagggtgggTATTCGGTGCTGGCTATATTTAAGATGGGTAAGAGGTAGA--GTGTCTGGATTTCTCCGTGGAAGTCACAGTGCCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452516 157 +  21915920 tgggttattgtatcctctggcttctggttagatacaac----cgagtgaaaatgagggcattagcagaagaagccatg-gagggtgggTATTCGGTGCTGGCTACATTTAAGATGGGTAAGAGGTAGA--GTGTCTGGATTTCTCCGTGGAAGTCACAGTGCCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19953994 158 -  90373283 TGGGTTATTGTATCCTCTGGCTTCTGGTGAGATACAACTGTGTGAGTGAAAATGAGGGCATTAGC---AGAAGCCATG-GAGGGTGAGTATTCGGTGCTGGCTACATTTAAGATGGGTAAGAGGTAGA--GTATCTGGATTTCTCCGTGGAAGTCACAGTGCCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457474 157 +   7543664 tgggttattgtatcctctggcttctggttagatacaac----cgagtgaaaatgagggcattagcagaagaagccatg-gagggtgggTATTCGGTGCTGGCTACATTTAAGATGGGTAAGAGGTAGA--GTGTCTGGATTTCTCCGTGGAAGTCACAGTGCCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228660 161 -  13750039 tgggttattgtatcctctggcttctggttagatacaactgtgtgagtgaaaatgagggcattagcagaagaagccatg-gagggtgggtattcggtgctggccacatttaagatgggtaagaggtaga--gtgtctggatttctctgtgaaagtcacagtgcct
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26486661 157 +  50472720 TAGATTATTGTATCCTATGGGTTCTTATTAAATACAGCTGTGGGAGGGAAAATTAGGGCATTAGCAGAAGACGTCATG-GAGGTTGGGTATTCAGTGCTGGCTACATTTAAGATGGGCAAAAGGTAGA------CTGTATTTCTCTATGGAAGCCGCAGTGCCT
i calJac3.chr21             C 0 I 1658
s saiBol1.JH378168            8681710 157 +  13128814 TAGATTATTGTATCCTCTGGTTTCTTATTAAATACAGCTGTGGGAGGGAAAATTAGGGCATTGGCAGAAGAAGTCATG-GAGGTTGGATATTCAGTGCTGGCTACATTTAAGATGGGCAAGAGGTAGA------CTGGATTTCTCCATGGAAGCCACAGTGCCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13910026 157 -  14377064 TAGATTATTGTATCCTCTGGCTTCTTATTAAATACAGCTGTGAGAGGGAAAATTAGGGCATTAGCAGAAGAAGTCATG-GAGGTTGGGTATTCAGTGCTGGCTGCATTTAAGATGGGCAAGAATTAGA------CTGGATTTCTCCATGGAAGCCACAGTGCCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9141907 157 -   9889416 tagattattgtatcctctggcatcttattgaatgcagctgtgggagggaaaattagggcattagcagaagaagtgatg-gaggttgggtattcaGTGCTGGCTACATTTAAGATGGGCAAGAGGTAGA------CTGGATTTCTCCATGGAAGCCACAGTGCCT
i aotNan1.NW_018487195v1    C 0 I 2228
s otoGar3.GL873528           24853787 132 -  38779656 TCAGCT-TTGTGCCCTGTGGCTTCTGGTTTGATACAGCCTTGGGAGTGACCATTAGGGCACTGGCAAATGAAGATGTA-GGACCTGAGTATTCAGCCCTCGCTACATCCAACATGAGCCTGGAGCAGA--GTGTCC----------------------------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2354742 164 +   3081153 tggattctcttgccctctggcttctgatttaattaagccatgggaatgaccagtaggagatggacagaagaaggaatgtggggttgggaattcagtgctggctcccttcctgttgagccagaggttgaccttgtttgagcttatttatggaaaccacggtgcca
i dasNov3.JH578070          I 3 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I

a score=12376.000000
s hg38.chr21_GL383579v2_alt     91281 1 +    201197 t
s panTro5.chr21               8709640 1 +  33445071 t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248856 1 +  46275980 t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231447 1 -  13858734 t
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260627 1 +  32716333 t
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667771 1 - 185818997 T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303914 1 - 192294377 T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927805 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452673 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954152 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457631 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228821 1 -  13750039 t
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985481 1 -  50472720 T
i calJac3.chr21             T 30832 C 0
s saiBol1.JH378168            8681867 1 +  13128814 T
i saiBol1.JH378168          C 0 I 800
s cebCap1.NW_016107322v1     13910183 1 -  14377064 T
i cebCap1.NW_016107322v1    C 0 I 2548
s aotNan1.NW_018487195v1       746932 1 +   9889416 T
i aotNan1.NW_018487195v1    T 26636 C 0
s dasNov3.JH578070            2354906 1 +   3081153 t
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24853919 0 -  38779656 C

a score=1345040.000000
s hg38.chr21_GL383579v2_alt     91282 133 +    201197 -tggggaagttatctttta---cTATCATT----TTCTCTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGCGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGCAAAAAAAT-
s panTro5.chr21               8709641 133 +  33445071 -tgggaaagttatctttta---cTATCATT----TTCTCTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGCGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGCAAAAAAAT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248857 133 +  46275980 -tgggaaagttatctttta---cTATCATT----TTCTCTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGCGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGCAAAAAAAT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231448 133 -  13858734 -tggggaagttatctttta---cTATCATT----TTCTCTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCGAGGAAGCAAAAAAAT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260628 132 +  32716333 -tggggaagttacctttta---cTATCATT----TTCTCTTCTCAAGTTC-------AGGCTGA----------GAAGAACTTTCCCT---ATATGAGACTGCAGAGGTATCTGAACTGTTAATATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667772 132 - 185818997 -TGGGGAAGTTATCTCTTA---CTATAATT----TTCTTTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATAAGACTGCAGAGCTATCTGAATTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167303915 132 - 192294377 -TGGGGAAGTTATCTCTTA---CTATAATT----TTCTTTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927806 132 -  30496662 -TGGGGAAGTTATCTCTTA---CTATAATT----TTCTTTTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452674 132 +  21915920 -TGGGGAAGTTATCTTTTA---CTATAATT----TTCTTTTCTCAAGTTC-------AGGCTGA----------GAAGAACTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954153 132 -  90373283 -TGGGGAAGTTATCTTTCA---CTATAATT----TTCTTTTCTCAAGATC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457632 132 +   7543664 -TGGGGAAGTTATCTTTTA---CTATAATT----TTCTTTTCTCAAGTTC-------AGGCTGA----------GAAGGGCTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGC----------------------------TGGAAAGAGCCAAGGAAGC-AAAAAAT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228822 160 -  13750039 -tggggaagttatctttta---ctataatt----ttctttTCTCAAGTTC-------AGGCTGA----------GAAGGACTTTCCCT---ATATGAGACTGCAGAGCTATCTGAACTGTTAGTATTTCTAGGCCAATAGAAAGTTAGTATTTCTAGGCCAATGGAAAGAGCCAAGGAAGC-AAAAAAT-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985482 132 -  50472720 -TGGGGAGGTTATCTTTCA---CTATAATT----TTCTTTTCACAAGTTC-------TGGCTGA----------GAAGGACTTTTCCC---AGTTGAGACTGCAGAGCTATCTGAACAGTTAATATTTCTAGGC----------------------------TGGAAAGAGCCAAAGAAGA-AAAAAAT-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446538 132 -  13128814 -TGGGGAGGTTATCTTTCA---CTATAATT----TTCTTTTCACAAGTTC-------TGGCTGA----------GAAAGACTTTTCCT---ATTTGAAACTACAGAGCTATCTGAACAGTTAATATTTCTAGTC----------------------------CGGAAAGAGTCAAAGAAGA-AAAACAT-
i saiBol1.JH378168          n 800 C 0
s cebCap1.NW_016107322v1       466461 131 +  14377064 -TGGGGAGGTTATCTTTCA---CTATAATT----TTCTTTTCACAAGTTC-------TGGCTGA----------GGAGGACTTTTCCT---ATTTGAGACTGCAGAGCTATCTGAACAGTTAACATTTCTAGGC----------------------------TGTAAAGAGCCAAAGAAGA-AAAA-AT-
i cebCap1.NW_016107322v1    n 2548 C 0
s aotNan1.NW_018487195v1       746933 131 +   9889416 -TGGGGAGGTTATCTTTCA---CTATAATT----TTCTTTTCACAAGTTC-------TGGCTGA----------GAAGGACTTTTCCT---ATTTGAGACTGCAGAGCTATCTGAACAGTTAATATTTCTAGGC----------------------------TGGAAACAGCCAAAGAAGA-AAAA-AT-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24853919 151 -  38779656 ----AGAAGTTCTCTCTTACAGCCATGATTAACGCTCTCTCCTCAAGCTCACTTAAAATGCTAATTTTAATTTTAAAAGACTGTGTCC---ATCTGAGGCTGCAGAGCTGTCTGAAGTATAACAGTTTAGAGGC----------------------------TACAAGAAACTAA-GAAGC-AAAAAA--
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2354907 132 +   3081153 ggtggacaggtacttctta---caataatt----ctc----cttaggctc-------tgTCTGA----------GATGAATGTTTCCTTCCAAGATAGAGTACAGAAAAATCAGAATTGTTAGTGTTTGGAAAC----------------------------TA-ACAGAGCCAGAGAAGT-AAGGAAGT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I

a score=709150.000000
s hg38.chr21_GL383579v2_alt     91415 79 +    201197 GCAGAAAGGtatattagtctgttctcacactgctataaagaactacctaagactgggtcatttataaagaaaagaagtt
s panTro5.chr21               8709774 79 +  33445071 GCAGAAAGGtgtattagtctgttctcacactgctataaagaactacctaagactgggtcatttataaagaaaagaagtt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22248990 79 +  46275980 GCAGAAAGGtgtattagtctgttctcacactgctataaagaactacctaagactgggtcatttataaagaaaagaagtt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231581 79 -  13858734 GCAGAAAGGtgtattagtctgttctcacactgctataaagaactacctaagactgggccatttataaggaaaagaagtt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260760 79 +  32716333 GTAGAAAGGtgtattagtctgttctcacactgctataaagaactacctaagactgggtcatttataaagaaaagaagtt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667904 72 - 185818997 ATAGAAAGGtgtatcagtctgttttcacactgctat-aagaactacctaagactgggtcatttat------aagaagtt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304047 72 - 192294377 ATAGAAAGGtgtatcagtctgttttcacactgctat-aagaactacctaagactgggtcatttat------aagaagtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4927938 78 -  30496662 ATAGAAAGGtgtatcagtctgttttcacactgctat-aagaactacctaagactgggtcatttataaataaaagaagtt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452806 78 +  21915920 ATAGAAAGGtgtatcagtctgttctcacactgctat-aagaactacctaagactgggtcatttataaataaaagaagtt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954285 78 -  90373283 ATAGAAAGGTCtatcagtctattttcacactgctat-aagaactacctaagactgggtcatttataaataaaagaagtt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457764 78 +   7543664 ATAGAAAGGtgtatcagtctgttctcacactgctat-aagaactacctaagactgggtcatttataaataaaagaagtt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5228982 78 -  13750039 ATAGAAAGGtgtatcagtctgttctcacactgctat-aagaactacctaagactgggtcatttataaataaaagaagtt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985614 79 -  50472720 GTAGAAAGGCgtattagtctgttctcatactactataaaaaactacctaagactggatcatttataaagaaaagaagtt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446670 79 -  13128814 GTAGAAAGGtgtattagtctgttctcatactgctataaagaactacctaagactggatcatttataaagaaacgaagtt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466592 79 +  14377064 GTAGAAAGGtgtgttagtctgttctcatactacactaaagaactacctaagactggatcatttataaagaaaagaagtt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747064 78 +   9889416 GTAGAAAGGtgtattagtctgttctcatactactataaagaactacctaagactggatcatttataaagaaa-gaagtt
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24854070 10 -  38779656 ---------------------------------------------------------------------AAAAAAAATT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355039  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I

a score=516786.000000
s hg38.chr21_GL383579v2_alt     91494 54 +    201197 taattgattcatagttccacaggctgtacaggaggcatggctggagaggcctca
s panTro5.chr21               8709853 54 +  33445071 taattgattcatagttccacaggctgtacaggaggcatggctggagaggcctca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249069 54 +  46275980 taattgattcatagttccacaggctgtacaggaggcatggctggagaggcctca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231660 54 -  13858734 taattgattcatagctccacaggctgtacaggaggcatggctggagaggcctca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260839 54 +  32716333 taattgattcatatttccacaggttgtacaggaggcatggctggagaggcctca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160667976 54 - 185818997 taattgactcacggttccacaggttgtacaggaggcatggctggagaggcctca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304119 54 - 192294377 taattgactcacggttccacaggttgtacaggaggcatggctggagaggcctca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928016 54 -  30496662 aaattgactcacggttccacaggttgtacaggaggcatggctggagaggcctca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452884 54 +  21915920 taattgactcacggttccacaggttgtacaggaggcatggctggagaggcctca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954363 54 -  90373283 taattgattcacggttccacaggttgtacaggaggaatggctggagaggcctca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457842 54 +   7543664 taattgattcacagttccacaggttgtacaggaggcatggctggagaggcctca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229060 54 -  13750039 tagttgattcacggttccacaggttgtacaggaggcatggctggagaggcctca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985693 53 -  50472720 taactgattcaca-ttccacaggctgtacaggaggcacgactggagaggcttca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446749 42 -  13128814 taactgattcacagttccacaggctgtaca------------ggagaggcttca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466671 54 +  14377064 taactgattcacagttccacaggctgtacagtaggcatggctggggaggcttca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747142 54 +   9889416 taactgattcacagttccacaggctgtacaggaggaacggctggagaggcttca
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355039  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24854080  0 -  38779656 C

a score=88208.000000
s hg38.chr21_GL383579v2_alt     91548 7 +    201197 ggaaact
s panTro5.chr21               8709907 7 +  33445071 ggaaact
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249123 7 +  46275980 ggaaact
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231714 7 -  13858734 ggaaact
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260893 7 +  32716333 ggaaact
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668030 7 - 185818997 ggaaact
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304173 7 - 192294377 ggaaact
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928070 7 -  30496662 ggaaact
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452938 7 +  21915920 ggaaact
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954417 7 -  90373283 ggaaact
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457896 7 +   7543664 ggaaact
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229114 7 -  13750039 ggaaact
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985746 7 -  50472720 ggaaact
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446791 7 -  13128814 ggaaact
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466725 7 +  14377064 ggaaact
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747196 7 +   9889416 ggaaact
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2355039 7 +   3081153 AGAAACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24854080 0 -  38779656 C

a score=537868.000000
s hg38.chr21_GL383579v2_alt     91555 51 +    201197 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
s panTro5.chr21               8709914 51 +  33445071 t-acagtcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249130 51 +  46275980 t-acaatcatggcagaagggtaaaggagaaacaaacatgtcttcacatggtg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231721 51 -  13858734 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260900 51 +  32716333 t-acaatcatggcagaagggtaaaggagaaacaagcatgccttcacatggtg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668037 51 - 185818997 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304180 51 - 192294377 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928077 51 -  30496662 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452945 51 +  21915920 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954424 51 -  90373283 t-acaatcatggcagaagggtaaaagagaaacaagcatgtcttcacatggtg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457903 51 +   7543664 t-acaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229121 52 -  13750039 taacaatcatggcagaagggtaaaggagaaacaagcatgtcttcacatggtg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985753 51 -  50472720 t-acaaacatggcagaagggtgaaggggaaacaagtatgtcttcacatggtg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446798 51 -  13128814 t-acaatcacggcagaagggtgaagggggaacaagcatgtcttcacatggtg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466732 51 +  14377064 t-acaatcatggcagaagggtgaaggggaaacaagcatgtcttcacatggtg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747203 51 +   9889416 a-acaaccatggcagaagggtgaaggggaaacaaatatgtcttcacatggtg
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355046  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24854080  0 -  38779656 C

a score=250315.000000
s hg38.chr21_GL383579v2_alt     91606 26 +    201197 gcaggagagagagtgaagggcggaag
s panTro5.chr21               8709965 26 +  33445071 gcaggagagagagtgaagggcggaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249181 26 +  46275980 gcaggagagagagtgaagggcggaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231772 26 -  13858734 gcaggagagagagtgaagggcggaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260951 26 +  32716333 gcaggagagagagtgaagggcggaag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668088 26 - 185818997 gcaggagacagagtgaagggtggaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304231 26 - 192294377 gcaggagacagagtgaagggtggaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928128 26 -  30496662 gcaggagacagagtgaagggtggaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13452996 26 +  21915920 gcaggagacagagtgaagggtggaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954475 26 -  90373283 gcaggagacagagtgaagggtggaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3457954 26 +   7543664 gcaggagacagagtgaagggtggaag
i manLeu1.NW_012103476v1    C 0 I 5
s colAng1.NW_012120598v1      5229173 26 -  13750039 gcaggagacagagtgaagggcagaag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985804 26 -  50472720 gcaggagagagagtgaagggggggaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446849 26 -  13128814 gcagaagagagagtgaagaggggatg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466783 26 +  14377064 gcgggagagagagtgaaggggggaag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747254 26 +   9889416 gcaggagagagagtgaagcgggggag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24854080 13 -  38779656 GCAGAGGAGACAG-------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355046  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I

a score=80669.000000
s hg38.chr21_GL383579v2_alt     91632 9 +    201197 tgacataca
s panTro5.chr21               8709991 9 +  33445071 tgacataca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249207 9 +  46275980 tgacataca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231798 9 -  13858734 tgacataca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260977 9 +  32716333 tgacataca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668114 9 - 185818997 tgacacaca
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167304257 9 - 192294377 tgacacaca
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4928154 9 -  30496662 tgacacaca
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13453022 9 +  21915920 tgacacaca
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19954501 9 -  90373283 tgacacaca
i chlSab2.chr2              C 0 I 1
s colAng1.NW_012120598v1      5229199 9 -  13750039 tgacacaca
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              23985830 9 -  50472720 tgacataca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446875 9 -  13128814 tggcataca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466809 9 +  14377064 tgacataca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747280 9 +   9889416 tgacataca
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355046 0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24854093 0 -  38779656 C
e manLeu1.NW_012103476v1      3457980 5 +   7543664 I

a score=263296.000000
s hg38.chr21_GL383579v2_alt     91641 26 +    201197 cttttTATGATCAgaattataattca
s panTro5.chr21               8710000 26 +  33445071 cttttTATGATCAgaattataattca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249216 26 +  46275980 cttttTATGATCAgaattataattca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231807 26 -  13858734 cttttTATGATCAgaattataattca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9260986 26 +  32716333 cttttTATGATCAgaattataattca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668124 26 - 185818997 ttttTTatcatcagaattataattca
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167304267 26 - 192294377 ttttTTatcatcagaattataattca
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4928164 26 -  30496662 ttttTTatcatcagaattataattca
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13453032 26 +  21915920 ttttTTatcatcagaattataattca
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               19954511 26 -  90373283 ttttTTatcatcagaattataattca
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3457985 26 +   7543664 TTTTTTatcatcagaattataattca
i manLeu1.NW_012103476v1    I 5 C 0
s colAng1.NW_012120598v1      5229209 26 -  13750039 ttttTTatcatcagaattataattca
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              23985839 26 -  50472720 cttttTATGATCAgaattataattca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            4446884 26 -  13128814 cttCTTATGATCAgaattataattca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1       466818 26 +  14377064 cttttTATGATCAgaattataattca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1       747289 26 +   9889416 cttctTATGATCAgaattataattca
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355046  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24854093  0 -  38779656 C

a score=259455.000000
s hg38.chr21_GL383579v2_alt     91667 27 +    201197 acataagatttgggtggggacaaagag
s panTro5.chr21               8710026 27 +  33445071 acataagatttgggtggggacaaagag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249242 27 +  46275980 acataagatttgggtggggacaaagag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231833 27 -  13858734 acataagatttgggtggggacaaagag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9261012 27 +  32716333 acataagatttgggtggggacaaagag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668150 27 - 185818997 acataaggtttgggtggggacaaagag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304293 27 - 192294377 acataaggtttgggtggggacaaagag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928190 27 -  30496662 acataagatttgggtggggacaaagag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13453058 27 +  21915920 acataaggtttgggtggggacaaagag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954537 27 -  90373283 acataaggtttgggtggggacaaagag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3458011 27 +   7543664 acataaggtttgggtggggacaaagag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229235 27 -  13750039 acataaggtttgggtggggacaaagag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              23985865 27 -  50472720 gcataagatttgcatggggacacagaG
i calJac3.chr21             C 0 n 0
s saiBol1.JH378168            4446910 27 -  13128814 gcataaggtttgtatggggacacagaG
i saiBol1.JH378168          C 0 n 0
s cebCap1.NW_016107322v1       466844 27 +  14377064 gcataagatttgtatggggacacagaG
i cebCap1.NW_016107322v1    C 0 n 0
s aotNan1.NW_018487195v1       747315 27 +   9889416 gcataagattggtatggggacacagaG
i aotNan1.NW_018487195v1    C 0 n 0
s dasNov3.JH578070            2355046 11 +   3081153 ATATAACATTT----------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24854093  0 -  38779656 C

a score=2047826.000000
s hg38.chr21_GL383579v2_alt     91694 319 +    201197 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGCACTTTGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGCCCTAAAACTCTGGTTCCAGCACCAA---CGACACACGCAACAGAAAGAGAAAGACCAGAATTTCAATTGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAGTCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACAATATTTATGTTTCTAGAAGATAAGCCTAATGAAAACT
s panTro5.chr21               8710053 318 +  33445071 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGCACTTTGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGCCCTAAAACTCTGGTTCCAGCACCAA---GGACACACGCAACAGAAAGAGAAAGACCAGAATTTCAATTGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAGTCTGAAAACATTAGTTAAATTATTTTCACTTAACA----TTTCACAATATTTATGTTTCTAGAATATAAGCCTAATGAAAACt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249269 319 +  46275980 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGCACTTTGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGCCCTAAAACTCTGGTTCCAGCGCCAA---GGACACACACAACAGAAAGAGAAAGACCAGAATTTCAATTGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAGTCTGAAAACATTAGTTAAACTATTTTCACTTAACA---TTTTCACAATATTTATGTTTCTAGAATATAAGCCTAATGAAAACt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8231860 319 -  13858734 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGCACTTTGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGCCCTAAAACTCTGGTTCCAGCACCAA---GGACACACGCAACAGAAAGAGAAAGACCAGAATTTCAATTGACTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAGTCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACAATATTTATGTTTCTAGAATATAAGCCTAATGAAAACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9261039 319 +  32716333 ccaaacaatatcaAAGGGAGATGATTATCCCTCGCCAGTCTCTCTCAGCTCTGGCAAAGAAGCACTTTGACTCCTCAGTTAGAGAGTGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGCCCTAAAACTCTGGTTCCAGCACCAA---GGACACACGCAACAGAAAGAGAAAGACCAGAATTTCAATTGCCTT---GTAGATCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAGTCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACGATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668177 316 - 185818997 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTACAGGGTGCTTTGGAAAAATTGTTGAATCT-CTTGCACTGTGGGATGCCCTAAAA--CTGGTTCCAGCACCAA---AGACACACGCAACAGAAAGAGAAAGACCAGAATTGCAATTGCCTT---GTAGAGCAAGGTATAATTTTTGAAAAATAAAATAG-AAAAAACCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACCATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304320 317 - 192294377 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTGTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTGTTGAATCT-CTTGCACTGTGGGATGCCCTAAAA--CTGGTTCCAGCACCAA---AGACACACGCAACAGAAAGAGAAAGACCAGAATTGCAATTGCCTT---GTAGAGCAAGGTATAATTTTTGAAAAATAAAATAGAAAAAAACCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACCATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928217 317 -  30496662 ccaaacaatatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTGTTGAATCT-CTTGCACTGTGGGATGCCCTAAAA--CTGGTTCCAGCACCAA---AGACACACGCAACAGAAAGAGAAAGACCAGAATTGCAATTGCCTT---GTAGAGCAAGGTATAATTTTTGAAAAATAAAATAGAAAAAAACCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACCATTTTAATGTTTCTAGAATATAAGCCCAATGAAAACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13453085 317 +  21915920 ccaaacaatatcaAAGGGAAATGATTATCTCTCGCCAGTGTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTGTTGAATCT-CTTGCACTGTGGGATGTCCTAAAA--CTGGTTCCAGCACCAA---GGACACACGCAACAGAAAGAGAAAGACCAGAATTGCAATTGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAACCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACCATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954564 317 -  90373283 ccaaacaatatcaAAGGCAGATGATTATCTCTTGCCAGTCTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTAGAGGGTGCTGTGGAAAAATTGTTGGATCT-CTTGCACTGTGGGATGCCCTAAAA--CTGGTTCCAGCACCAA---GGACACACGCAACAGAGAGAGAAAGACCAGAATTGCAATTGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAACCTGAAAACATTAGTTAAATTATTTTCACTTAACA---TTTTCACCATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3458038 313 +   7543664 ccaaacagtatcaAAGGGAAATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTAGAGGGCGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGTCCTAAAA--CTGGTTCCAGCACCAA---GGACACACGCAACAGAAAGAGAAAGACCAGAATTGCAACTGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAATAGAAAAAAACCTGAAAACA----TTAAATTATTTTCACTTAACA---TTTTCACCATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229262 317 -  13750039 ccaaacagtatcaAAGGGAGATGATTATCTCTCGCCAGTCTCTCTCAGCTCCAGCAAAGAAGGACTTCGACTCCTCAGTTAGAGGGTGCTTTGGAAAAATTATTGAATCT-CTTGCACTGTGGGATGCCCTAAAA--CTGGTTCCAGCACCAA---GGACACACGCAACAGAAAGAGAAAGACCAGAATTGCAATCGCCTT---GTAGAGCAAGGTACAATTTTTGAAAAATAAAGTAGAAAAAATCCTGAAAACATTAGTTAAATTATTTTCACTTGACA---TTTTCACCATTTTTATGTTTCTAGAATATAAGCCCAATGAAAACT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24854093 268 -  38779656 ----------------------GACTGTTTCTCTTCTGTCCCTCTCAACCTCAGCAAAGAAAGGGCTTGGCTTCCCAGGTACAGAGTATTTTGGAAAATTTTATGATTGT-CTTGTACTGTGTGAGTACTGAAAACTCTGGTTCCACCAC--------------------AAAAGAAAGAGACCAGAATTTGAAATGTCTT---GTGGAAAATGGAAACAT--------AATAAAATAGGAAAAAACCTACAAATGTGAGTGAAATTGTTTTC-CTTATCA---TTTTCACCATCATTATGCTTACAGAATATAAGGCAAAGCAAA---
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2355057 294 +   3081153 -----------------------------TCTCCTCAGTCTTTCTCAGCAACAGCAGAGAAGAGTGTTGGCTCCTGAGGTGCAGAATACTTTGAAGACATTCATGATTCTCCTTGCCCTGTGGAA-GACTCAGAACTCTA---CCAGCACCAAAGGGGATGTACACAAGAGAAAGTGAGAGACCAGAACTTCATTTTTCTTACAATAGATCAGTGAACT-TTTCTGAGAAGTAGAAAAGAAAAGAACCTGGAAACATGGATTAAATTGTTTT-GCTTATCATTGTTTTCATCACTATTGTATTGATTGATTTGAAGCCTAATGCAAACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I

a score=161702.000000
s hg38.chr21_GL383579v2_alt     92013 28 +    201197 TTATTTTGTTTTCATTGTATTTATTAGT
s panTro5.chr21               8710371 28 +  33445071 ttattttgttttcattttatttattAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249588 28 +  46275980 ttattttgttttcattttatttattAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232179 28 -  13858734 TTATTTTGTTTTCATTTTATTTATTAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9261358 28 +  32716333 GTCTTTTGTTTTCATtttatttattagt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160668493 28 - 185818997 TTCTTTTGTTTTCATTTTATTTATTAGT
i rheMac8.chr3              C 0 I 45
s macFas5.chr3              167304637 28 - 192294377 TTCTTTTGTTTTCATTTTATTTATTAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928534 28 -  30496662 TTCTTTTGTTTTCATTTTATTTATTAGT
i macNem1.NW_012015021v1    C 0 I 45
s cerAty1.NW_012002954v1     13453402 28 +  21915920 TTCTTTTGTTTTCATTTTATTTATTAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954881 28 -  90373283 TCCTTTTGTTTTCATTTTATTTATTAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3458351 28 +   7543664 TTCTTTTGTTTTCATTTTATTTATTAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229579 28 -  13750039 TTCTTTTGTTTTCATTTTATTTATTAGT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24854361 22 -  38779656 -TTTTTTTTTTTAGTTGttttta-----
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cebCap1.NW_016107322v1       466871  0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342  0 +   9889416 I
e calJac3.chr21              23985892  0 -  50472720 I
e saiBol1.JH378168            4446937  0 -  13128814 I

a score=2997.000000
s hg38.chr21_GL383579v2_alt     92041 1 +    201197 T
s panTro5.chr21               8710399 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249616 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232207 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9261386 1 +  32716333 t
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167304665 1 - 192294377 C
i macFas5.chr3              C 0 I 6
s cerAty1.NW_012002954v1     13453430 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 I 44
s chlSab2.chr2               19954909 1 -  90373283 T
i chlSab2.chr2              C 0 I 44
s manLeu1.NW_012103476v1      3458379 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 I 44
s colAng1.NW_012120598v1      5229607 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 I 44
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351 0 +   3081153 C
e macNem1.NW_012015021v1      4928562 45 -  30496662 I
e rheMac8.chr3              160668521 45 - 185818997 I
e cebCap1.NW_016107322v1       466871 0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342 0 +   9889416 I
e calJac3.chr21              23985892 0 -  50472720 I
e saiBol1.JH378168            4446937 0 -  13128814 I
e otoGar3.GL873528           24854383 0 -  38779656 C

a score=2630.000000
s hg38.chr21_GL383579v2_alt     92042 7 +    201197 ATAtttt
s panTro5.chr21               8710400 7 +  33445071 ATAtttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249617 7 +  46275980 ATAtttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232208 7 -  13858734 ATttttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9261387 7 +  32716333 atttttt
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167304672 6 - 192294377 ACTCTT-
i macFas5.chr3              I 6 I 32
s otoGar3.GL873528           24854383 3 -  38779656 ---ttt-
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351 0 +   3081153 C
e cerAty1.NW_012002954v1     13453431 44 +  21915920 I
e macNem1.NW_012015021v1      4928562 45 -  30496662 I
e rheMac8.chr3              160668521 45 - 185818997 I
e cebCap1.NW_016107322v1       466871 0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342 0 +   9889416 I
e calJac3.chr21              23985892 0 -  50472720 I
e saiBol1.JH378168            4446937 0 -  13128814 I
e colAng1.NW_012120598v1      5229608 44 -  13750039 I
e manLeu1.NW_012103476v1      3458380 44 +   7543664 I
e chlSab2.chr2               19954910 44 -  90373283 I

a score=205389.000000
s hg38.chr21_GL383579v2_alt     92049 34 +    201197 attgtggtaaggccacac---atgatatctatcttct
s panTro5.chr21               8710407 34 +  33445071 attgtggtaaggacacac---atgatatctatcttct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249624 34 +  46275980 attgtggtaaggccacac---atgatatctatcttct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232215 34 -  13858734 attgtggtaaggccacac---atgatatctatcttct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9261394 34 +  32716333 attGTGGTAAGGCCACAC---ACGATATCTACCTTCT
i nomLeu3.chr25             C 0 I 1676
s rheMac8.chr3              160668566 34 - 185818997 attgtggtaaggccaccg---atgatatctatcttct
i rheMac8.chr3              I 45 C 0
s macFas5.chr3              167304710 34 - 192294377 attgtggtaaggccaccg---atgatatctatcttct
i macFas5.chr3              I 32 C 0
s macNem1.NW_012015021v1      4928607 34 -  30496662 attgtggtaaggccaccg---atgatatctatcttct
i macNem1.NW_012015021v1    I 45 C 0
s cerAty1.NW_012002954v1     13453475 34 +  21915920 attgtggtaaggccaccg---atgatatctatcttct
i cerAty1.NW_012002954v1    I 44 C 0
s chlSab2.chr2               19954954 34 -  90373283 attgtggtaaggccaccg---atgatatctatcttcc
i chlSab2.chr2              I 44 C 0
s manLeu1.NW_012103476v1      3458424 34 +   7543664 attgtggtaaggccaccg---atgatatctatcttct
i manLeu1.NW_012103476v1    I 44 C 0
s colAng1.NW_012120598v1      5229652 34 -  13750039 attgtggtaaggccaccg---atgatatctatcttct
i colAng1.NW_012120598v1    I 44 C 0
s otoGar3.GL873528           24854386 37 -  38779656 attgtgctaagaacacagaacataaaatctactctct
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cebCap1.NW_016107322v1       466871  0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342  0 +   9889416 I
e calJac3.chr21              23985892  0 -  50472720 I
e saiBol1.JH378168            4446937  0 -  13128814 I

a score=1079226.000000
s hg38.chr21_GL383579v2_alt     92083 221 +    201197 taacaaattttgaattgtacagtacagtatggtttactgtaagcactatgctgtagagaagatctccagaattttttcatcttccttaactgaaactttataccatttgaagagcaactagtcatttctttctcctcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttacatcatctcgtaaaagg-tatcatgcataaa--
s panTro5.chr21               8710441 221 +  33445071 taacaaattttgaattgtacagtacagtatggtttactataagcactatgctgtagagaagatctccagaattttttcatcttccttaactgaaactttataccatttgaagagcaactagtcatttctttctcctcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttacatcatctcataaaagg-tatcatgcataaa--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249658 221 +  46275980 taacaaattttgaattgtacagtacagtatggtttactataagcactatgctgtagagaagatctccagaattttttcatcttccttaactgaaactttataccatttgaagagcaactagtcatttctttctcctcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttacatcatctcataaaagg-tatcatgcataaa--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232249 221 -  13858734 taacaaattttgaattgtacagtacagtatggtttactataagcactatgctgtagagaagatctccagaattttttcgtcttccttaactgaaactttataccatttgaagagcaactagtcatttctttctcctcccatacaatgtaaattgccattctattttctgcttctatgaatttgactatttacattatctcataaaagg-tatcatgcataaa--
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160668600 220 - 185818997 taacaaattttgaagtgtacagtacagtatggtttactataagcactacgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccatttgaagagcaactagtcacgtc-ttctcctcccatacagtgtaaattgccattctattttctgtttctatgaatttgactatttccatgctctcataaaagg-tatcatgcataaa--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304744 220 - 192294377 taacaaattttgaagtgtacagtacagtatggtttactataagcactatgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccatttgaagagcaactagtcacgtc-ttctcctcccatacagtgtaaattgccattctattttctgtttctatgaatttgactatttccatgctctcataaaagg-tatcatgcataaa--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928641 220 -  30496662 taacaaattttgaagtgtacagtacagtatggtttactataagcactatgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccatttgaagagcaactagtcacgtc-ttctcctcccatacagtgtaaattgccattctattttctgtttctatgaatttgactatttccatgctctcataaaagg-tatcatgcataaa--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13453509 221 +  21915920 taacaaattttgaggtgtacagtacagtatggtttactataagcactatgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccatttgaagagcaactagtcatgtc-ttctcctcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttccatgctctcataaaaggttatcatgcataaa--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19954988 220 -  90373283 taacaaattttgaagtgtacagtacagtatggtttactataagcactatgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccattcgaagagcaactagtcacgtc-ttctcctcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttccatgatctcataaaagg-tatcatgcataaa--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3458458 220 +   7543664 taacaaattttgaggtgtacagtacagtatggtttactataagcactatgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccatttgaagagcaactagtcatgtc-ttctcctcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttccatgctctcataaaagg-tatcatgcataaa--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5229686 221 -  13750039 taacaaattttgaagtgtacagtacagtgtggtttactataagcactatgttgtagagaagatctccagagttttttcatcttccttaactgaaactttctaccatttgaagagcaactagtcacgtc-ttctcttcccatacagtgtaaattgccattctattttctgcttctatgaatttgactatttccatgctctcataaaaggttatcatgcataaa--
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24854423 166 -  38779656 taacaaattttcacctagacagtacagtgcgaatcattaccggcactatgttgcagagtgcgtctctagaactg----------cttaactgaaactttataccctttg---------TAAAcatgtt-gtc--------------ataagtagcag------------------------ggactctttttaaggctgtataacatttcatcgtatgtataca
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=16200.000000
s hg38.chr21_GL383579v2_alt     92304 14 +    201197 atacatatcttcat
s panTro5.chr21               8710662 14 +  33445071 atacatatcttcat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249879 14 +  46275980 atacatatcttcat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232470 14 -  13858734 atacatatcttcat
i gorGor5.CYUI01015003v1    C 0 C 0
s manLeu1.NW_012103476v1      3458678 14 +   7543664 atacatatctgcat
i manLeu1.NW_012103476v1    C 0 C 0
s otoGar3.GL873528           24854589 14 -  38779656 gcacatatcttaat
i otoGar3.GL873528          C 0 I 120
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cerAty1.NW_012002954v1     13453730  0 +  21915920 C
e macNem1.NW_012015021v1      4928861  0 -  30496662 C
e macFas5.chr3              167304964  0 - 192294377 C
e rheMac8.chr3              160668820  0 - 185818997 C
e cebCap1.NW_016107322v1       466871  0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342  0 +   9889416 I
e calJac3.chr21              23985892  0 -  50472720 I
e saiBol1.JH378168            4446937  0 -  13128814 I
e colAng1.NW_012120598v1      5229907  0 -  13750039 C
e chlSab2.chr2               19955208  0 -  90373283 C
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=14763.000000
s hg38.chr21_GL383579v2_alt     92318 17 +    201197 aaaaggtatcatgcagt
s panTro5.chr21               8710676 17 +  33445071 aaaaggtatcatgcagt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249893 17 +  46275980 aaaaggtatcatgcagt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232484 17 -  13858734 gaaaggtatcatgcagt
i gorGor5.CYUI01015003v1    C 0 C 0
s manLeu1.NW_012103476v1      3458692 17 +   7543664 gaaaggtatcatacagt
i manLeu1.NW_012103476v1    C 0 I 4072
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cerAty1.NW_012002954v1     13453730  0 +  21915920 C
e macNem1.NW_012015021v1      4928861  0 -  30496662 C
e macFas5.chr3              167304964  0 - 192294377 C
e rheMac8.chr3              160668820  0 - 185818997 C
e cebCap1.NW_016107322v1       466871  0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342  0 +   9889416 I
e calJac3.chr21              23985892  0 -  50472720 I
e saiBol1.JH378168            4446937  0 -  13128814 I
e otoGar3.GL873528           24854603 120 -  38779656 I
e colAng1.NW_012120598v1      5229907  0 -  13750039 C
e chlSab2.chr2               19955208  0 -  90373283 C
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=56749.000000
s hg38.chr21_GL383579v2_alt     92335 105 +    201197 tgccgagaccagctcggttggggagaccctaacccagtggtgccagaggaattaaagacacacacacagaaatatagaggtgtgaagtgggaaatctggggtctc
s panTro5.chr21               8710693 105 +  33445071 tgccgagaccatctcggttggggagaccctaacccagtggttctagaggaattaaagacacacacacagaaatatagaggtgtgaagtgggaaatctggggtctc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22249910 105 +  46275980 tgccgagaccatctcggttggggagaccctaacccagtggttctagaggaattaaagacacacacacagaaatatagaggtgtgaagtgggaaatctggggtctc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232501 105 -  13858734 tgccgagaccagctcggtcggggagaccctaacccagtggtgctagagaaattaaagacacacacacagaaatatagaggtgtgaagtgggaaatctggggtcta
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e cerAty1.NW_012002954v1     13453730   0 +  21915920 C
e macNem1.NW_012015021v1      4928861   0 -  30496662 C
e macFas5.chr3              167304964   0 - 192294377 C
e rheMac8.chr3              160668820   0 - 185818997 C
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e otoGar3.GL873528           24854603 120 -  38779656 I
e colAng1.NW_012120598v1      5229907   0 -  13750039 C
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e chlSab2.chr2               19955208   0 -  90373283 C
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=55562.000000
s hg38.chr21_GL383579v2_alt     92440 93 +    201197 acagccttcagagct---gatagcccctaacagagatttacccacatatttattaacagcaaaccagtcattagcattgtttct---atagatattaaa
s panTro5.chr21               8710798 93 +  33445071 acagccttcagagct---gatagcccctaacagagatttacccacatatttattaacagcaaaccagtcattagcattgtttct---atagatattaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22250015 93 +  46275980 acagccttcagagct---gatagcccctaacagagatttacccacatatttattaacagcaaaccagtcattagcattgtttct---atagatattaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232606 93 -  13858734 acagccttcagagct---gatagcccctaacagagatttacccacatatttgttaacagcaaaccagtcattagtattgtttct---atagatattaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24854723 91 -  38779656 actgctctccaaactctagatagtgcct---ggaga-----ccaaataatgactcaaagaaatccagctctgtgagttagttattagataggtattaga
i otoGar3.GL873528          I 120 I 459
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cerAty1.NW_012002954v1     13453730  0 +  21915920 C
e macNem1.NW_012015021v1      4928861  0 -  30496662 C
e macFas5.chr3              167304964  0 - 192294377 C
e rheMac8.chr3              160668820  0 - 185818997 C
e cebCap1.NW_016107322v1       466871  0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342  0 +   9889416 I
e calJac3.chr21              23985892  0 -  50472720 I
e saiBol1.JH378168            4446937  0 -  13128814 I
e colAng1.NW_012120598v1      5229907  0 -  13750039 C
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e chlSab2.chr2               19955208  0 -  90373283 C
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=159712.000000
s hg38.chr21_GL383579v2_alt     92533 314 +    201197 ttaactaaaagtatcccttatgggaaacgaagggatgggccaaattaaaggaataggttgagctagttaactgcagcaggagcatgtccttaaggcacagattgctcaacctattgtttgtggcttaagaatgcctgtaagtggttttccaccctgggcggtgcaggtgttctttgcccacattgcggtaa----acccacaaccttccagcgtgggcgttagggccattatgaacatgctacagtgctgccgagattttgttcatggccagttttggggccagtttatggccagattttgggtggcttgctcccaac
s panTro5.chr21               8710891 314 +  33445071 ttaactaaaagtatcccttatgggaaacgaagggatgggccaaattaaaggaataggttgagctagttaactgcagcaggagcatgtccttaagtcacagattgctcatcctattgtttgtggcttaagaatgcctataagtggttttccaccctgggcggggcaggtgttctttgcccacattccggtaa----acccacaaccttccagggtgggcgttagggccattatgaacatgctacagtgctgccgagatttggttcatggccagttttggggccagtttatggccagattttgggtggcttgctcccaac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22250108 314 +  46275980 ttaactaaaagtatcccttttgggaaacgaagggatgggccaaattaaaggaataggttgagctagttaactgcagcaggagcatgtccttaaggcacagattgctcattctattgtttgtggcttaagaatgcctataagtggttttccaccctgggcggggcaggtgttctttgcccacattccggtaa----acccacaaacttccagggtgggcgttagggccattatgaacatgctacagtgctgctgagatttggttcatggccagttttggggccagtttatggccagattttgggtggcttgctcccaac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232699 295 -  13858734 ttaactaaaagtagcccttaagggaaacgaagggatgggccaaattaaaggaataggttgagctagttaactgcagcaggagcatgtccttaaggcacaaattgctcatcctattgtttgtggcttaagaatgcctataagtggttttccaccctgggcggggcaggtgttctttgcccacattccggtaaacccacccacaaccttccagtgtgggcgttagggccattatgaacatgctacagtgctgccgagattttgttc-----------------------atggccagattttgggtggcttgctcccaac
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e cerAty1.NW_012002954v1     13453730   0 +  21915920 C
e macNem1.NW_012015021v1      4928861   0 -  30496662 C
e macFas5.chr3              167304964   0 - 192294377 C
e rheMac8.chr3              160668820   0 - 185818997 C
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e otoGar3.GL873528           24854814 459 -  38779656 I
e colAng1.NW_012120598v1      5229907   0 -  13750039 C
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e chlSab2.chr2               19955208   0 -  90373283 C
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=938672.000000
s hg38.chr21_GL383579v2_alt     92847 239 +    201197 atacatatctgcataaaagatatcatgcagtatttgtccttctgttgctggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttc------ttttaaggctgaatagtattctatttgatgtatacaccataatttctttatgcaattatcagtccataggcattttaatcttttccacagcttgactattgtaattaatgctgaaatgaata
s panTro5.chr21               8711205 239 +  33445071 atacatatctgcataaaagatatcatgcagtatttgtccttctgttgctggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttc------ttttaaggctgaatagtattctacttgatgtatacaccataatttctttatgcaattatcagtccataggcattttaatcttttccacagcttgactattgtaattattgctgaaatgaata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22250422 239 +  46275980 atacatatctgcataaaagatatcatgcagtatttgtccttctgttgctggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttc------ttttaaggctgaatagtattctacttgatgtatacaccataatttctttatgcaattatcagtccataggcattttaatcttttccacagcttgactattgtaattattgctgaaatgaata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8232994 239 -  13858734 atacatatctgcataaaagatatcatgcagtatttgtccttctgttactggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttc------ttttaaggctgaatagtattctatttgatgtatacaccataatttctttatgcaattatcagtccataggcattttaatcttttccacagcttgactattgtaattaatgctgaaatgaata
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160668820 245 - 185818997 atacatatctgcatgaaaggtatcatacagtatttgtccttctgttactggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttcttttgtttttaaagctcaatagtattctatttgatgtatgcaccatagtttctttatccaattatcaatccacaggcatttaaatctttcccacagcttgactattgtaattaatgctgaaatgaatg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167304964 245 - 192294377 atacatatctgcatgaaaggtatcatacagtatttgtccttctgttactggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttcttttgtttttaaagctcaatagtattctatttgatgtatgcaccatagtttctttatccaattatcaatccacaggcatttaaatctttcccacagcttgactattgtaattaatgctgaaatgaatg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4928861 245 -  30496662 atacatatctgcatgaaaggtatcatacagtatttgtccttctgttactggcttatttctcttaccataatgtccctgatgtacattcatgttgtcacagatcacagaatttctttcttttgtttttaaagctcaatagtattctatttgatgtatgcaccatagtttctttatccaattatcaatccacaggcatttaaatctttcccacagcttgactattgtaattaatgctgaaatgaatg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13453730 245 +  21915920 atacatatctgcatgaaaggtatcatacagtatttgtccttctgttactggcttatttctcttaccataatgtccccgatgtacattcatgttgtcacagatcacagaatttctttcttttgtttttaaggctcaatagtattctatttgatgtatgcaccatagtttctttatccaattatcaatccacaggcattgaaatctttcccacagcttgactactgtaattaatgctgaaatgaatg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19955208 245 -  90373283 atacatatctgcatgaaaggtatcatacagtatttgtccttctgttactggcttatttctcttaccataatgtccccgatgtacattcatgttgtcacagatcacagaatttctttcttttgtttttaaagctcaatagtattctatttgatgtatgcaccatagtttccttatccaattatcaatccacaggcatttaaatctttcccacagcttgactattgtaattaatgctgaaatgaatg
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5229907 245 -  13750039 atacatatctgcatgaaaggtatcatacagtatttgttcttctgttaccggcttatttctcttaccataatgtccccgatgtacattcatgttgtcacagatcacagaatttctttcttttgtttttaaggctcaatagtattctattcgatgtatgcaccgtagtttctttatccaattatcaatccacaggcattttaatctttcccacagcttgactattgtaattaatgctgaaatgaatg
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e otoGar3.GL873528           24854814 459 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=2468237.000000
s hg38.chr21_GL383579v2_alt     93086 603 +    201197  
s panTro5.chr21               8711444 602 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22250661 601 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8233233 602 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160669065 600 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167305209 600 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4929106 600 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13453975 597 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19955453 601 -  90373283  
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5230152 601 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24855273 641 -  38779656  
i otoGar3.GL873528          I 459 I 224
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=81450.000000
s hg38.chr21_GL383579v2_alt     93689 19 +    201197 gtccttgctaagaccaatg
s panTro5.chr21               8712046 19 +  33445071 gtccttgctaagaccaatg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22251262 19 +  46275980 gtccttgctaagaccaatg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8233835 19 -  13858734 gtccttgctaagaccaatg
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160669665 19 - 185818997 gtccttgctaagaccaatg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167305809 19 - 192294377 gtccttgctaagaccaatg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4929706 19 -  30496662 gtccttgctaagaccaatg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13454572 19 +  21915920 gtccttgctaagaccaatg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19956054 19 -  90373283 gtccttgctaagaccaatg
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5230753 19 -  13750039 gtccttgctaagaccaatg
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cebCap1.NW_016107322v1       466871  0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342  0 +   9889416 I
e calJac3.chr21              23985892  0 -  50472720 I
e saiBol1.JH378168            4446937  0 -  13128814 I
e otoGar3.GL873528           24855914 224 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=4477155.000000
s hg38.chr21_GL383579v2_alt     93708 1075 +    201197  
s panTro5.chr21               8712065 1075 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22251281 1075 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8233854 1076 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160669684 1071 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167305828 1067 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4929725 1071 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13454591 1070 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19956073 1061 -  90373283  
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5230772 1073 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24856138 1065 -  38779656  
i otoGar3.GL873528          I 224 I 2073
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351    0 +   3081153 C
e cebCap1.NW_016107322v1       466871    0 +  14377064 I
e canFam3.chr31              18030899  800 +  39895921 I
e aotNan1.NW_018487195v1       747342    0 +   9889416 I
e calJac3.chr21              23985892    0 -  50472720 I
e saiBol1.JH378168            4446937    0 -  13128814 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=2757525.000000
s hg38.chr21_GL383579v2_alt     94783 730 +    201197  
s panTro5.chr21               8713140 730 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22252356 730 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8234930 727 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160670755 736 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167306895 736 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4930796 736 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13455661 736 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19957134 730 -  90373283  
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5231845 736 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e cebCap1.NW_016107322v1       466871   0 +  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1       747342   0 +   9889416 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=1720860.000000
s hg38.chr21_GL383579v2_alt     95513 330 +    201197 aggtgttttgacctacgttttctgatagtgtctttttctggctttgatatcagagtaatattggcctcatagaatgagtttggagaagttctttcctctttaatactttggaagagtttg--agaatgattgtcattaa--tactt-ctctaaatattttatagaattcaccattgaagtaatctagtcctgaagtaatttaccttt--tttgttgggaggtttttgattagtaattcggtattcttaatagttagtat-tatcttcaaattttc-tatttcttcatgattcattgttggtaggttacatctttcatggaatttatctatttcttctag
s panTro5.chr21               8713870 330 +  33445071 aggtgttttgacctatgttttctgatagtgtctttttctggctttgatatgagagtaatattggcctcatagaatgagtttggagaagttctttcctctttaatactttggaatagtttg--agaatgattgtcattaa--tactt-ctttaaatattttatagaattcaccattgaagtaatctagtcctgaagtaatttagtttt--tttgttgggaggtttttgattagtgattcggtattcttaatagttagtat-tatcttcaaattttc-tatttcttcatgattcattgtgggtaggttgcatctttcatggaatttacctatttcttctag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253086 330 +  46275980 aggtgttttgacctatgttttctgatagtgtctttttctggctttgatatgagagtaatattggcctcatagaatgagtttggagaagttctttcctctttaatactttggaagagtttg--agaatgattgtcattaa--tactt-ctttaaatattttatagaattcaccattgaagtaatctagtcctgaagtaatttagtttt--tttgttgggaggtttttgattagtgattcggtattcttaatagttagtat-tatcttcaaattttc-tatttcttcatgattcattgtgggtaggttgcatctttcatggaatttacctatttcttctag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8235657 330 -  13858734 aggtgttttgacctacgttttctgacagtgtctttttctggctttgatatcagagtaatattggcctcatagaatgactttggagaagttctttcctctttaatactttggaagagtttg--agaatgattgtcattaa--tactt-ctctaaatattttatagaattcaccattgaagtaatctagtcctgaagtaatttagcttt--tttgttgggaggtttttgattagtaattcggtattcttaatagttagtat-tatcttcaaatttcc-tgtttcttcatgattcattgttggtaggttacatctctcatggaatttatctatttcttctag
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160671491 325 - 185818997 aggtgttttgacctacattttctgatagtgtctttttctggctttggtatcagagtaacattggcctcatagaatgagtttggagaagttctttcctttttaatactt-----aagtttg--agaatgattcttattaa--tacta-tgttaaatattttatagaattcaccattgaagtaatctagtcctgaagtaaggtagcttt--tttgttgggagatttttgattagtaatttggtattcttaatagttagtag-tctcttctaattttc-tatttcttcatgattcattgttggtaggttgcatctttcatggaatttatctatttcttctgg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167307631 325 - 192294377 aggtgttttgacctacattttctgatagtgtctttttctggctttggtatcagagtaacattggcctcatagaatgagtttggagaagttctttcctttttaatactt-----aagtttg--agaatgattcttattaa--tacta-tgttaaatattttatagaattcaccattgaagtaatctagtcctgaagtaaggtagcttt--tttgttgggagatttttgattagtaatttggtattcttaatagttagtag-tctcttctaattttc-tatttcttcatgattcattgttggtaggttgcatctttcatggaatttatctatttcttctgg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4931532 325 -  30496662 aggtgttttgacctacattttctgatagtgtctttttctggctttggtatcagagtaacattggcctcatagaatgagtttggagaagttctttcctttttaatactt-----aagtttg--agaatgattcttattaa--tacta-tgttcaatattttatagaattcaccattgaagtaatctagtcctgaagtaaggtagcttt--tttgttgggagatttttgattagtaatttggtattcttaatagttagtag-tctcttctaattttc-tatttcttcatgattcattgttggtaggttgcatctttcatggaatttatctatttcttctgg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13456397 330 +  21915920 aggtgttttgacctacattttctgatagtgtctttttctggctttggtatcagagtaatattggtctcatagaatgagtttggagaacttcattcctttttaatactttggaagagtttg--agaatgattcttattaa--tacta-cgttaaatattttatagaattcaccattgaagtaatctagtcctgaagtaaggtagcttt--tttgttgggaggtttttgattagtaattcggtattcttaatagttagtag-tctcttctaattttc-tatttcttcatgattcattgttggtaggttgcatctttcatggaatttatctatttcttctag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19957864 325 -  90373283 aggtgttttgacctacattttctgatagtgtctttttctggttttggtatcagagtaatactggcctcatagaatgagtttggagaagttctttcctttttaatactt-----aagtttg--agaatgattcttattaa--tacta-cattaaatattttatagaattcaccattgaagtaatctagtcctgaagcaaggtagcttt--tttgttgggaggtttttgattagtaattcagtattcttaatagttagtag-tctcttctaattttc-tatttcttcatgattcattgttggtaggttgcatctttcatggaatttatctatttcttctag
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5232581 331 -  13750039 aggtgttttgacctacattttctgatagcgtctttttctggctttgctatcagagtaatattggtctcatagaatgagtttggagaagttctttcctttttaatactttggaagagtttg--agaatgattcttattaa--cactacttttaaatattttatagaatttaccattgaagtaatctagtcctgaagtaacgtagcttt--tttgttgggaggtttttgattagtaattcggtattcttaatagttagtag-tctcttctaattttc-tatttcttcatgattcattgttggtaggttgcaactttcatggaatttatctatttcttctag
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13912732 338 -  14377064 aggtgttttggcctacattttctggtagtgtctttttctggctttggtatcagaataatattggccacatagaatgagtttggagaagttcttttctctttaatactctggaagagtttgaaagaatgtttctcattaatgttttt-ttttaagtagttgatagaattcaccattgaagtaatctagtcctgaagtaatctggcttttctttgttgggaggtttttgattagtaattcaatattcttaataggtacaagttctcttcaattttttaaatttcttcatgattcagtgttggtaagttgcatctctcatggaatttatctatttcttctag
i cebCap1.NW_016107322v1    I 2548 I 20
s aotNan1.NW_018487195v1      9144292 335 -   9889416 aggtgctttggcctacattttctggtagtgtctttttctggctttggtatcagagtaatattggccacatagaatgagtttagagaagttcttttctctttaatactttggaagagtttgaaagaatgctgctcattaa--ttttt-ttttaagtagttgatagaattcaccattgaagtaatctagtcctaaagtgacctggcttttctttgttgggaggtttttgattagtaattcaatattcttaataggaacaag-tctcttcaaatttttttatttcttcatgattcagtgttggtaggttgcatcttccatggaatttatctgtttcttctag
i aotNan1.NW_018487195v1    I 2228 I 14
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=14842.000000
s hg38.chr21_GL383579v2_alt     95843 4 +    201197 gtta
s panTro5.chr21               8714200 4 +  33445071 gttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253416 4 +  46275980 gttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8235987 4 -  13858734 gtta
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160671816 4 - 185818997 gtta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167307956 4 - 192294377 gtta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4931857 4 -  30496662 gtta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13456727 4 +  21915920 gtta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19958189 4 -  90373283 gtta
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5232912 4 -  13750039 gtta
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351 0 +   3081153 C
e cebCap1.NW_016107322v1     13913070 20 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1      9144627 14 -   9889416 I
e calJac3.chr21              23985892 0 -  50472720 I
e saiBol1.JH378168            4446937 0 -  13128814 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=25651.000000
s hg38.chr21_GL383579v2_alt     95847 6 +    201197 tgccat
s panTro5.chr21               8714204 6 +  33445071 tgccat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253420 6 +  46275980 tgccat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8235991 6 -  13858734 tgccat
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160671820 6 - 185818997 tgccat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167307960 6 - 192294377 tgccat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4931861 6 -  30496662 tgccat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13456731 6 +  21915920 tgccat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19958193 6 -  90373283 cgccat
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5232916 6 -  13750039 caccat
i colAng1.NW_012120598v1    C 0 C 0
s aotNan1.NW_018487195v1      9144641 6 -   9889416 tatcat
i aotNan1.NW_018487195v1    I 14 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351 0 +   3081153 C
e cebCap1.NW_016107322v1     13913070 20 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e calJac3.chr21              23985892 0 -  50472720 I
e saiBol1.JH378168            4446937 0 -  13128814 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=636150.000000
s hg38.chr21_GL383579v2_alt     95853 129 +    201197 tgttgacatataattgttcttagtagtttcttataatcagttttacatctgtggcactggttgcaatgtctctttcatttacatttccatttactcaaatcttctc--t-ttttttcttagtatagctaaag
s panTro5.chr21               8714210 129 +  33445071 tgttgacatataattgttcttagcagtttcttataatcagttttacatctgtggcactggttgcaacgtctctttcatttccatttccatttactcaaatcttctc--t-ttttttcttagtatagctaaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253426 129 +  46275980 tgttgacatataattgttcttagtagtttcttataatcagttttacatctgtggcactggttgcaacgtctctttcatttccatttccatttactcaaatcttctc--t-ttttttcttagtatagctaaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8235997 129 -  13858734 tgttgacatataactgttcttagtagtttcttataataagttttacatctgtggcactggttgcaatgtctctttcatttacatttccatttactcaaatcttctc--t-ttttttcttagtatagctaaag
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160671826 127 - 185818997 tgttgacacataattgttcttagtagttacttataatcatttttatatctgtggcactggttgtaatgtctctttcatttatatttctattcactagaatcttctc-----tttttcttagtaaagctaaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167307966 127 - 192294377 tgttgacacataattgttcttagtagttacttataatcatttttatatctgtggcactggttgtaatgtctctttcatttatatttctattcactagaatcttctc-----tttttcttagtaaagctaaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4931867 127 -  30496662 tgttgacacataattgttcttagtagttacttataatcatttttatatctgtggcactggttgtaatgtctctttcatttatatttctattcactagaatcttctc-----tttttcttagtaaagctaaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13456737 127 +  21915920 tgttgacacatgattgttcttagtagtttcttataatcatttttatatctgtggcactggttgtaatgtctctttcatttacatttctattcactagaatcttctc-----tttttcttagtagagctaaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19958199 127 -  90373283 tgttgacacataattgttctcagtagtttcttataatcatttttatatctgtggcactggttgtaatgtctctttcatttatatttctattcactagaatcttctc-----tttgtcttagtaaagctaaag
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5232922 131 -  13750039 tgttgacacaaacttgttcttagtagtttcttataatcatttttatatctatggcactggttgtaaagtctctttcatttatatttctattcactagaatcttctctct-ttttttcttagtatagctaaag
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13913090 130 -  14377064 tgttgacatataattgttcttaatagtttcttataatcatttttatttctgtggcactggctgtagtgcctctttcatttatatttctatttattcaaatcttctc--tcttttttcttcgtatagctaaag
i cebCap1.NW_016107322v1    I 20 C 0
s aotNan1.NW_018487195v1      9144647 124 -   9889416 tgttgacata------ttcttagtagtttcttataatcatttttatatctgtggcagtgactgtagtgccgctttcatttatatttctatttattcaaatcttctc--tcttttttcttggtatagctaaag
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e calJac3.chr21              23985892   0 -  50472720 I
e saiBol1.JH378168            4446937   0 -  13128814 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=2227068.000000
s hg38.chr21_GL383579v2_alt     95982 402 +    201197 atttggcaactttgcttgtctttaaaaagacaactcaatttgttacctcttt--ttattgttttt--ccgtcctttttttatatttctgctctaatctttgc-attttttttcttctactaatttgagcttagttttctcttccttttttagtctcttgggatgtaaagttagatagttcatttgaaaacttg-tttttttaaatgtaggtacttaccgctgtaaacttttctcttagtgctgctttgatgcatgttataaatattggtatgttgtgttttcattattgtttctgcaagatattatattagattgtgttagat-ttttctaatgttga------taagatattttctaatttttaaaaacttcgtgtttgaactattggttacaagtgtgttgtatagttttcac
s panTro5.chr21               8714339 396 +  33445071 atttggcaattttgcttgtctttaaaaagacaactcaatttgttacctcttt--ttattgttttt--ccgtcctttttttatatttctgctctaatctttgc-a-tttttttcttctactaatttgagtttagttttctcttccttttttagtctcttgggatgtaaagttacatagtttatttgaaaacttc-tttttttaaatgtaggtacttatcgctgtaaactt-----ttagtgctgctttgatgcatgttataaatattggtatgttgtgttttcattattgtttctgcaagatattatattacattatgttagat-ttttctaatgttga------taagatattttcaaatttttaaaaacttcgtgtttgaactgttggttacaagtgtgttgtatagttttcac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253555 394 +  46275980 atttggcaattttgcttgtctttaaaaagacaactcaatttgttacctcttt--ttattg-tttt--ccgtcc-ttttttatatttctgctctaatctttgc-a-tttttttcttctactaatttgagtttagttttctcttccttctttagtctcttgggatgtaaagttacatagtttatttgaaaacttc-tttttttaaatgtaggtacttatcgctgtaaactt-----ttagtgctgctttgatgcatgttataaatattggtatgttgtgttttcattattgtttctgcaagatattatattacattatgttagat-ttttctaatgttga------taagatattttcaaatttttaaaaacttcgtgtttgaactgttggttacaagtgtgttgtatagttttcac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8236126 397 -  13858734 atttggcaattttgcttgtctttaaaaagacaattcaatttgttacctcttt--ttattgttttt--ctgtcc-ttttttatatttctgctctaatctttgc-a-tttttttcttctactaatttgagcttagttttctcttccttttttagtctcttgggatgtaaagttatatagtttatttgaaaact---tttttttaaatgtaggtacttatcgctgtaaacttttctcttagtgctgctttgatgcatgttataaatattggtatgttgtgttttcattattgtttctgcaagatattatattagattatgttagat-ttttctaatgttga------taagatattttctaatttttaaaaacttc-tgtttgaattattggttacaagtgtgttgtatagttttcac
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160671953 391 - 185818997 atttgccaattttgcttgtctttaaaaagacaattc-----gttacct-ttt--ttattgttttt--ctgtcc--tttttttatttctgctctaatctttac-t-tttttttcttctgttaatttgaacttagtttgctcttccttttttagtctcttggggtgtaaagttagacagtttatgtgaaaacttc-cttttt--aatgtaggtacttatcaatgtaaacttttctcttagtactgctttgatgcatgttgtaaatattggtatgttgtgttttaattattgtttctgcaagatattacattagattgtgttaaat-ttttctaatgttga------taagatattttccaatttttaaaaacttcgtgtttgaactattggttacaagtgtgttgtgtagttttcac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167308093 390 - 192294377 atttgccaattttgcttgtctttaaaaagacaattc-----gttacct-ttt--ttattgttttt--ctgtcc--tttttttatttctgctctaatctttac-t-tttttttcttctgttaatttgaacttagtttgctcttccttttttagtctcttggggtgtaaagttagacagtttatgtg-aaacttc-cttttt--aatgtaggtacttatcaatgtaaacttttctcttagtactgctttgatgcatgttgtaaatattggtatgttgtgttttaattattgtttctgcaagatattacattagattgtgttaaat-ttttctaatgttga------taagatattttccaatttttaaaaacttcgtgtttgaactattggttacaagtgtgttgtatagttttcac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4931994 391 -  30496662 atttgccaattttgcttgtctttaaaaagacaattc-----gttacct-ttt--ttattgttttt--ctgtcc--tttttttatttctgctctaatctttac-t-ttgttttcttctgttaatttgaacttagtttgctcttccttttttagtctcttggggtgtaaagttagacagtttatgtgaaaacttc-cttttt--aatgtaggtacttatcaatgtaaacttttctcttagtactgctttgatgcatgttgtaaatattggtatgttgtgttttaattattgtttctgcaagatattacattatattgtgttaaat-ttttctaatgttga------taagatattttccaatttttaaaaacttcatgtttgaactattggttacaagtgtgttgtgtagttttcac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13456864 391 +  21915920 atttgccaattttgcttgtctttaaaaagacaattc-----attacct-ttt--ttattgttttt--ctgtcc--tttttttatttctgctctaatctttac-t-tttttttcttctgttaatttgaacttagtttgctcttcctttttcagtctcttggggtgtaaagttagacagtttatgtgaaaacttc-cttttt--aatgtgggtacttatcaatgtaaacttttctcttagtactgctttgatgcatgttgtaaatattggtatgttgtgttttaattattgtttctgcaagatattatattagattgtgttaaat-ttttctaatgttga------taagaaattttccaatttttaaaaacttcatgtttgaactattggttacaagtgtgttgtatagttttcac
i cerAty1.NW_012002954v1    C 0 I 15
s chlSab2.chr2               19958326 378 -  90373283 atttgtcaattttgcttgtctttaaaaagacaattc-----gttacct-ttt--ttattgttttt--ctgtcc-ttttttttatttctgctctaatctttactt-tttttttcttctgttaatttgaacttagtttgctcttccttttttagtctcttggggtgtaaagttagacagtttatgtgaaaacttc-cttttt--aatgt---------------taaacttttctcttagtactgctttgatgcatgttgtaaatattggtatgttgtgttttaattattgtttctgcaagatattacattagattgtgttaaat-ttttctaatgttga------taagatattttccaatttttaaaaacttcgtgtttgaactattggttacaagtgtgttgtataattttcac
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5233053 392 -  13750039 atttgccaatcttgtttatctttaaaaagacaatcc-----gttacct-ttt--ttattgttttt--ctgtcc-ttttttttatttctgctctaatctttacat-tttttttcttctgttaatttgaacttagtttgctctt-cttttttagtctcttggtgtgtaaagttagacagttcatgtgaaaacttc-cttttt--aatgtaggtacttatcaatgcaaacttttctcttagtactgctttgatgcatgttgtaaatattggtatgttgtgttttaattactgtttctgcaagatattatattagattgtgttaaat-ttttctaatgttga------tcagatattctccaatttttaaaaacttcatgtttgaactattggttacaagtgtgttgtatagttttcac
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8682668 408 +  13128814 atttgccagttttgcttgtctttaaaaag--agaacaatttgttaact-ttttattgtttttttttcctgttc-ttttttatatttctgctctaatctttag-attttttttcttctgctagtttgacgttagttttctcttccttttttagtttcttggggtgtaaagttagatagtttatttgaaagcttcttttttt--aatgtaggtacttatcactgtaaacttttctcttagtactactttgatccatcttagaaatattggaatgttgtgttttaattattgtttcttcaagacattgtattagattatgttcaatgtttttcaatgttgatattgataagacattttctaatttttaaaaaagtcatatttgaactactggttatacatgtgttgtatagttttcac
i saiBol1.JH378168          I 800 C 0
s cebCap1.NW_016107322v1     13913220 405 -  14377064 atttgccaattttgcttgtctttaaaaagacagaacaatttgttaact-ttt--ttattgtttttttctgttc-ctttttatatttctgctttaatctttca-a-tttttttcttctgctaattcgatgttagttttctcttcc-tttttagtttcttggggtataaagttagacagtttatttgaaagcttc-tttttt--aatgtaggtactcatcactgtaaacttttctcttagtactcctttgatccatcttataaatattggtaagttgtgttttaattattgtttctgcaagacattattttaggttatattcaatgttttctaatgttgatattggtaagacattttctaatttttaaaaacatcatatttgaactattgcttataaatatgttgcatagctttcac
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9144771 409 -   9889416 atttgccaattttgcttgtctttaaaaagacagaacaatttgttaaca-ttttttatttttttttttctgttc-ttttttatatttctgccctgatctttag-attttttttcttctgctaatttgaggttcgttttctcttccttttttagtttcttggggtatgaagttggacagtttatttgaaagcttc-tttttt--aatgtaggtacttatcactgtaaacttttctgttagtactcctttggtccatcttataaatattggtatgttgtattttaattattgtttctgcaagacattatattagattatgttcaatgttttctaatgttgatattgataagacattttctaatttttaaaaatgtcatatttaaacgattggttataaatgtgttgtatagttttcac
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e calJac3.chr21              23985892   0 -  50472720 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=65948.000000
s hg38.chr21_GL383579v2_alt     96384 17 +    201197 agatttgtgaattgttc
s panTro5.chr21               8714735 17 +  33445071 agatttgtcgattgttc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253949 17 +  46275980 agatttgtcgattgttc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8236523 17 -  13858734 agatttgtcaattgttc
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160672344 15 - 185818997 --ctctgtcatttgttc
i rheMac8.chr3              C 0 I 2
s macFas5.chr3              167308483 15 - 192294377 --ctctgtcatttgttc
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      4932385 15 -  30496662 --ctctgtcatttgttc
i macNem1.NW_012015021v1    C 0 I 2
s chlSab2.chr2               19958704 15 -  90373283 --ctctgtcatttgttt
i chlSab2.chr2              C 0 I 2
s colAng1.NW_012120598v1      5233445 15 -  13750039 --ctctgtcatttgttc
i colAng1.NW_012120598v1    C 0 I 2
s saiBol1.JH378168            8683076 17 +  13128814 atatttgtcaattgttc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13913625 17 -  14377064 gtatttgtcaattgttc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9145180 17 -   9889416 atatttgtcaattgttc
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cerAty1.NW_012002954v1     13457255 15 +  21915920 I
e canFam3.chr31              18030899 800 +  39895921 I
e calJac3.chr21              23985892  0 -  50472720 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=1451303.000000
s hg38.chr21_GL383579v2_alt     96401 234 +    201197 ag-ttttcttctgctcttgatttctaattttattccactgtggtcat-aaagacacttggcatgatttcagtcttctcaaatttgttaaggcttgttttgagaccta--acgtgatcaatactggagaatattctgtgtgtgcttgaaaataatgttcattctgctgctgttttgtaaaatgtcttcatgtttctataagttcaattttctatttagtattgttcaaatacttggttt
s panTro5.chr21               8714752 236 +  33445071 agtttttcttctgctcttgatttctaattttattccactgtggtcataaaagacacttggcatgatttcagtcttctcaaatttgttaaggcttgttttgagaccta--acgtgatcagtactggagaatattctgtgtgtggttgaaaataatgttcattctgctgctgttttgtaaaatgtctccatgtttctataagttcaattttctctttagtattgttcaaatacttggttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22253966 236 +  46275980 agtttttcttctgctcttgatttctaattttattccactgtggtcataaaagacacttggcatgatttcagtcttctcaaatttgttaaggcttgttttgagaccta--acgtgatcagtactggagaatattctgtgtgtgcttgaaaataatgttcattctgctgctgttttgtaaaatgtctccatgtttctataagttcaattttctctttagtattgttcaaatacttggttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8236540 236 -  13858734 agtttttcttctgctcttgatttctaattttattccactgtggtcataaaagacacttggcatgatttcagtcttctcaaatttgttaaggcttgttttgagaccta--acgtgatcagtactggagaatattctgtgtgtgcttgaaaataatgttcattctgctgctgttttgtaaaatgtctccatgtttctataagttcaattttctctttagtattgttcaaatacttggttt
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160672361 237 - 185818997 -gtttttcttctgctcttgatttctaattttattccattgtggtcataaaagatacttggcatgattccaatctcctcaaatttgttaaggcttgttttcagacctaacacatgatcagtactggagaatattctatgtgtacttgaaaataatgttcattctgctgctgttttgtaaaatgtctccgtgtgtctataagttcaattttctctttaatattgttcaaatacttggttt
i rheMac8.chr3              I 2 C 0
s macFas5.chr3              167308500 237 - 192294377 -gtttttcttctgctcttgatttctaattttattccattgtggtcataaaagatacttggcatgactccaatctcctcaaatttgttaaggcttgttttcagacctaacacatgatcagtactggagaatattctatgtgtacttgaaaataatgttcattctgctgctgttttgtaaaatgtctccgtgtgtctataagttcaattttctctttaatattgttcaaatacttggttt
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      4932402 237 -  30496662 -gtttttcttctgctcttgatttctaattttattccattgtggtcataaaagagacttggcatgattccaatctcctcaaatttgttaaggcttgttttcagacctaacacatgatcagtactggagaatattctatgtgtacttgaaaataatgttcattctgctgctgttttgtaaaatgtctccgtgtgtctataagttcaattttctctttaatattgttcaaatacttggttt
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13457270 237 +  21915920 -gtttttcttctgctcttgatttctaattttattccattgtggtcataaaagatacttggcatgattccaatctcctcaaatttgttaaggcttgttttcagacctaacacatgatcagtactggagaatattctatgtgtacttgaaaataatgttcattctgctgctgttttgtaaaacgtcgccgtgtgtctataagttcaattttctctttagtattgttcaaatacttggttt
i cerAty1.NW_012002954v1    I 15 C 0
s chlSab2.chr2               19958721 237 -  90373283 -gtttttcttctgctcttgatttctaattttattccattgtggtcataaaagatacttggcatgattccaatctcctcaaatttgttaaggcttgttttcagacctaacacatgatcagtactggagaatattctatgtgtacttgaaaataatgttcattctgctgctgttttgtaaaatgtctccatgtgtctgtaagttcaattttctctttaacattgttcaaatacttggttt
i chlSab2.chr2              I 2 C 0
s colAng1.NW_012120598v1      5233462 237 -  13750039 -gtttttcttctgctcttgatttctaattttattccattgtggtcataagagtcacttggcatgatttcaatctcctcaaatttggtaaggcttgttttgagacctaacacgtgatcagtactggagaatattctgtgtgtacttgaaaataatgttcattctgctgctgttttgtaaaatgtctccatgtgtctataagttcaattttctctttagtattgttcaaatacttggttt
i colAng1.NW_012120598v1    I 2 C 0
s saiBol1.JH378168            8683093 238 +  13128814 agttattcttctactattgatttctaattttattccactgtggtcataaaagatgtttggcgtgaattcaatattctcaaatttgttaagtcttgctttgagaactaacatatgatctataatggagaacattccgtgtgtgcttaaaaataatcttcattcttctgttgttttataaaatgtctccatgtgtctgtaagtttaattttctctctagttttgttcaaatccttgcttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13913642 236 -  14377064 agttattcttctactattgatttctaattttattccactgtgatcataagagatgtttggcatgatttcagtattctcaaatttgtt--gtcttgttttgggaactaacatatgatctatactgaagaacattccctgtgtgcttaaaaataatcttcattcttctgttgttttataaaatgtctccatgtgtctgtaagtttaattttctctctagtattgttcaaatccttgcttt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9145197 236 -   9889416 agttattcttctaccattgatttctaattttattccactgtggtcataaaagatgtttggtgtga--tcagtcttctcaaatttgttaagtcttgctttgagaactaacatatgctctatgctggagaacattccgtgtgtgcttaaaaataatcttcattcttctgttgttctgtaaaatgtctccatgtgtctgtaagtttaattttctctctagtattgttcaaacccttgcttt
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351   0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e calJac3.chr21              23985892   0 -  50472720 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e manLeu1.NW_012103476v1      3458709 4072 +   7543664 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=8124959.000000
s hg38.chr21_GL383579v2_alt     96635 1157 +    201197  
s panTro5.chr21               8714988 1160 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22254202 1160 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8236776 1151 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160672598 1155 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167308737 1151 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4932639 1151 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13457507 1154 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19958958 1152 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3462781 1156 +   7543664  
i manLeu1.NW_012103476v1    I 4072 C 0
s colAng1.NW_012120598v1      5233699 1157 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8683331 1183 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13913878 1200 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9145433 1185 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351    0 +   3081153 C
e canFam3.chr31              18030899  800 +  39895921 I
e calJac3.chr21              23985892    0 -  50472720 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=279729.000000
s hg38.chr21_GL383579v2_alt     97792 31 +    201197 agagattcatggggtctttaagacctCTCTG
s panTro5.chr21               8716148 31 +  33445071 agagattcatggggtctttaagacctCTCTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22255362 31 +  46275980 agagattcatggggtctttaagacctCTCTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8237927 31 -  13858734 agagattcatggggtctttaagacctCTCTG
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160673753 31 - 185818997 agagattcatggggtctttaagacctccCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167309888 31 - 192294377 agagattcatggggtctttaagacctccCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4933790 31 -  30496662 agagattcatggggtctttaagacctccCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13458661 31 +  21915920 agagattcatggggtctttaagacctccCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19960110 31 -  90373283 agtgattcatggggtctttaagacctCTCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3463937 31 +   7543664 agagattcatggggtctttaagacctccCTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5234856 31 -  13750039 agagattcatgggatctttaagacctCTCTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26488476 31 +  50472720 AGAGATTGCTGGGGTCTTTAAGACCTCTCTG
i calJac3.chr21             I 1658 C 0
s saiBol1.JH378168            8684514 31 +  13128814 agagattgctggggtctttaagacctctctg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13915078 31 -  14377064 agagattgctggggtctttaagacctctctg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9146618 31 -   9889416 agagattgctggggtctttaagacctCTCTG
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24857203 2073 -  38779656 I
e nomLeu3.chr25               9261428 1676 +  32716333 I

a score=407381.000000
s hg38.chr21_GL383579v2_alt     97823 45 +    201197 TGTATGCATCCTCTCTGGACTTGTGCATGTACATTTCGAACGTGA
s panTro5.chr21               8716179 45 +  33445071 TGTATGCATCCTCTCTGGACTTGTGCATGTACATTTTGAACGTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22255393 45 +  46275980 TGTATGCATCCTCTCTGGACTTGTGCATGTACATTTTGAACGTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8237958 45 -  13858734 TGTATGCATCCTCTCTGGACTTGTGCATGTACATTTCAAACGTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9263104 45 +  32716333 tacaTGCATCCTCTCTGGACTTGTGCATGTACATTTTGAACATGA
i nomLeu3.chr25             I 1676 C 0
s rheMac8.chr3              160673784 45 - 185818997 TGTTTGCATCCCCTGTGGACTTGTGCATGTACATTTCGAACATGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167309919 45 - 192294377 TGTTTGCATCCCCTGTGGACTTGTGCATGTACATTTCGAACATGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4933821 45 -  30496662 TGTTTGCATCCCCTGCGGACTTGTGCATGTACATTTCGAACATGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13458692 45 +  21915920 TGTTTGCATCCCCTGTGGACTTGTGCATGTACATTTCGAACATGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19960141 45 -  90373283 TGTTTGCATCCCCTGTGGACTTGTGCATGTACATTTCGAACATGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3463968 45 +   7543664 TGTTTGCATCCCCTGTGGACTTGTGCATGTACATTTCGAGCATGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5234887 45 -  13750039 TGTCTGCATACCCTGTGGACTTGTGCATGTACATTTCGAACATGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26488507 44 +  50472720 TGTATGTATCCTCTCTGGACTTGTGCATGTACATTTCCAA-GTGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8684545 44 +  13128814 tgtatgcatcctctcTGGACTTGTGCATGTACATTTCCAA-GTGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13915109 44 -  14377064 tgtatgcatcctctcTGTACTTGTGTATGTACATTTCCAA-GTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9146649 44 -   9889416 TGTATGCATCCTCTCTGGACTTGTGCATGTACATTTCCAA-GTGA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24857203 2073 -  38779656 I

a score=11326257.000000
s hg38.chr21_GL383579v2_alt     97868 1167 +    201197  
s panTro5.chr21               8716224 1158 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22255438 1153 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8238003 1158 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9263149 1190 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160673829 1168 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167309964 1156 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4933866 1170 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13458737 1168 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19960186 1166 -  90373283  
i chlSab2.chr2              C 0 I 329
s manLeu1.NW_012103476v1      3464013 1169 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5234932 1150 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26488551 1153 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8684589 1156 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13915153 1159 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9146693 1185 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24859276 1193 -  38779656  
i otoGar3.GL873528          I 2073 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351    0 +   3081153 C
e canFam3.chr31              18030899  800 +  39895921 I

a score=16640.000000
s hg38.chr21_GL383579v2_alt     99035 2 +    201197 ct
s panTro5.chr21               8717382 2 +  33445071 ct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22256591 2 +  46275980 ct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239161 2 -  13858734 ct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9264339 2 +  32716333 ct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160674997 2 - 185818997 CT
i rheMac8.chr3              C 0 I 1785
s macNem1.NW_012015021v1      4935036 2 -  30496662 CT
i macNem1.NW_012015021v1    C 0 I 316
s cerAty1.NW_012002954v1     13459905 2 +  21915920 ct
i cerAty1.NW_012002954v1    C 0 I 319
s manLeu1.NW_012103476v1      3465182 2 +   7543664 CT
i manLeu1.NW_012103476v1    C 0 I 651
s colAng1.NW_012120598v1      5236082 2 -  13750039 ct
i colAng1.NW_012120598v1    C 0 I 311
s calJac3.chr21              26489704 2 +  50472720 tt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685745 2 +  13128814 ct
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916312 2 -  14377064 ct
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9147878 2 -   9889416 ct
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24860469 2 -  38779656 TT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351 0 +   3081153 C
e macFas5.chr3              167311120 0 - 192294377 C
e canFam3.chr31              18030899 800 +  39895921 I
e chlSab2.chr2               19961352 329 -  90373283 I

a score=48303.000000
s hg38.chr21_GL383579v2_alt     99037 13 +    201197 -tgctgaCAGCCTT
s panTro5.chr21               8717384 13 +  33445071 -tgctgaCAGCCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22256593 13 +  46275980 -tgctgaCAGCCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239163 13 -  13858734 -tgctgaCAGCCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9264341 13 +  32716333 -tgctgaCAGCCTT
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167311120 11 - 192294377 ---CTGACAGCCTT
i macFas5.chr3              C 0 I 314
s calJac3.chr21              26489706 13 +  50472720 -tgctgaCAGGCTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685747 13 +  13128814 -tgctgaCAGGCTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916314 13 -  14377064 -tactgaCAGGCTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9147880 13 -   9889416 -tgctaaCAGGCTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24860471 14 -  38779656 TCGTTGATAGCTTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e cerAty1.NW_012002954v1     13459907 319 +  21915920 I
e macNem1.NW_012015021v1      4935038 316 -  30496662 I
e rheMac8.chr3              160674999 1785 - 185818997 I
e canFam3.chr31              18030899 800 +  39895921 I
e colAng1.NW_012120598v1      5236084 311 -  13750039 I
e manLeu1.NW_012103476v1      3465184 651 +   7543664 I
e chlSab2.chr2               19961352 329 -  90373283 I

a score=511589.000000
s hg38.chr21_GL383579v2_alt     99050 58 +    201197 CTGCAAACT-TATTTTTAATTCCTGTTTGCTCTTCACAAAAATTTGCTAATTTTTAACA
s panTro5.chr21               8717397 58 +  33445071 CTGCAAACT-TATTTTTAAGGCCTGTTTGCTCTTCACAAAAATTTGCTAATTTTTAACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22256606 58 +  46275980 CTGCAAACT-TATTTTTAAGGCCTGTTTGCTTTTCACAAAAATTTGCTAATTTTTAACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239176 58 -  13858734 CTGCAAACT-TATTTTTAAGGCCTGCTTGCTCTTCACAAAAATTTGCTAATTTTTAACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9264354 58 +  32716333 CTGCAAACT-TATTTTTAAGGCCTGTTTGCTCTTCACAAAAATTTGCTAATTtttaaca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160676784 58 - 185818997 cTGCAAACT-TATCTTTAAGGCCTGTTTGCTCTTCACAAAATTTTGCTAATATTCAACA
i rheMac8.chr3              I 1785 C 0
s macFas5.chr3              167311445 58 - 192294377 cTGCAAACT-TATCTTTAAGGCCTGTTTGCTCTTCACAAAATTTTGCTAATATTCAACA
i macFas5.chr3              I 314 C 0
s macNem1.NW_012015021v1      4935354 58 -  30496662 cTGCAAACT-TATCTTTAAGGCCTGTTTGCTCTTCACAAAATTTTGCTAATATTCAACA
i macNem1.NW_012015021v1    I 316 C 0
s cerAty1.NW_012002954v1     13460226 58 +  21915920 cTGCAAACT-TATTTTTAAGGCCTGTTTTCTCTTCACAAAATTTTGCTAATTTTCAACA
i cerAty1.NW_012002954v1    I 319 C 0
s chlSab2.chr2               19961681 58 -  90373283 cTGCAAACT-TATCTTTAAGGTCTGTTTGCTCTTCACAAAATTTTGCTAATTTTCAACA
i chlSab2.chr2              I 329 C 0
s colAng1.NW_012120598v1      5236395 58 -  13750039 cTGCAAACT-TATTTTTAAGGCCTGTTTTCTCCTCACAAAATTTTGCTAATTTTCAACA
i colAng1.NW_012120598v1    I 311 C 0
s calJac3.chr21              26489719 58 +  50472720 CTGCAAACG-TATCTTTAAGGCCTGTTTGCTCTTCACAAAATTTTGGTAATTTTGGACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685760 58 +  13128814 CTGCAAACA-TATCTTTAAGGCCTATTTGCTCTTCATAAAATTTTGATAATTTTTGACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916327 59 -  14377064 CTGCAAACGTTATCTTTAAGGCCTGTTTGCTCTTCACAAAATTTTGGTAATTTTTGACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9147893 58 -   9889416 CTGCAAACG-TATCTTTAAGGCCTGTTTGCTCTTCACAAAATTTTGGTAATTTTTGATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24860485 43 -  38779656 CTGCAAACT-TAT-TTTAAGGCCTATTGGCTCTTCACGAAACTTT--------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2355351  0 +   3081153 C
e canFam3.chr31              18030899 800 +  39895921 I
e manLeu1.NW_012103476v1      3465184 651 +   7543664 I

a score=86425.000000
s hg38.chr21_GL383579v2_alt     99108 10 +    201197 TATTTTAATT
s panTro5.chr21               8717455 10 +  33445071 TATTTTAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22256664 10 +  46275980 TATTTTAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239234 10 -  13858734 TATTTTAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9264412 10 +  32716333 tattttaatt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160676842 10 - 185818997 TATTTTAATT
i rheMac8.chr3              C 0 I 27
s macFas5.chr3              167311503  5 - 192294377 TATTT-----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935412 10 -  30496662 TATTTTAATT
i macNem1.NW_012015021v1    C 0 I 27
s cerAty1.NW_012002954v1     13460284 10 +  21915920 TATTTTAATT
i cerAty1.NW_012002954v1    C 0 I 27
s chlSab2.chr2               19961739 10 -  90373283 TATTTTAATT
i chlSab2.chr2              C 0 I 27
s colAng1.NW_012120598v1      5236453 10 -  13750039 TATTTTAATT
i colAng1.NW_012120598v1    C 0 I 27
s calJac3.chr21              26489777 10 +  50472720 TATTTTAATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685818 10 +  13128814 TATTTTAATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916386 10 -  14377064 TATTTTAATT
i cebCap1.NW_016107322v1    C 0 I 12
s aotNan1.NW_018487195v1      9147951 10 -   9889416 TATTTTAATT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2355351 10 +   3081153 TATTTCTAAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24860528  0 -  38779656 C
e manLeu1.NW_012103476v1      3465184 651 +   7543664 I

a score=1542.000000
s hg38.chr21_GL383579v2_alt     99118 3 +    201197 GAC-
s panTro5.chr21               8717465 3 +  33445071 GAC-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22256674 3 +  46275980 GAC-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239244 3 -  13858734 GAC-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9264422 3 +  32716333 tac-
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26489787 3 +  50472720 TAC-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685828 3 +  13128814 TAC-
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9147961 3 -   9889416 TAC-
i aotNan1.NW_018487195v1    C 0 I 10
s dasNov3.JH578070            2355361 3 +   3081153 -GCC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cerAty1.NW_012002954v1     13460294 27 +  21915920 I
e macNem1.NW_012015021v1      4935422 27 -  30496662 I
e macFas5.chr3              167311508 0 - 192294377 C
e rheMac8.chr3              160676852 27 - 185818997 I
e cebCap1.NW_016107322v1     13916396 12 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24860528 0 -  38779656 C
e colAng1.NW_012120598v1      5236463 27 -  13750039 I
e manLeu1.NW_012103476v1      3465184 651 +   7543664 I
e chlSab2.chr2               19961749 27 -  90373283 I

a score=9969.000000
s hg38.chr21_GL383579v2_alt     99121 64 +    201197 TAAATTTTAATTTAAAAATTTGCTAATTTTTAACATA-TTTAATTTACTAAAATTTATGTGACTC
s panTro5.chr21               8717468 64 +  33445071 TAAATTTTAATTTAAAAATTTGCTAATTTTTAACATA-TTTAATTTACTAAAATTTATGTGACTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22256677 62 +  46275980 TAAATTTTAATTTAAAAATTTGCTAATTTTTAACATA-TTTAATTTACTAAAATTTATGTGAC--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239247 63 -  13858734 TAAATTTTAA-TTAAAAATTTGCTAATTTTTAACATA-TTTAATTTACTAAAATTTATGTGACTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9264425 64 +  32716333 taaattttaatttaaAAATTTGCTAATTTTTGGCATA-TTTAATTTACTAAACTTTACGTGACTT
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167311508 17 - 192294377 ----------------------------------------TAATTTAC--------AAGTGACTC
i macFas5.chr3              C 0 I 1
s calJac3.chr21              26489790 10 +  50472720 ---------------------------------------------------AAGTGATGAA----
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685831 10 +  13128814 ---------------------------------------------------AAGTGATGTG----
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24860528 32 -  38779656 -------------------------AGTTTTGATATA-TTTAATTTTC---AAATTATGCA----
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2355364 53 +   3081153 TGATTTTCCCTTCACA-----GTTGATTTATGATGTGCTTCAGTTTAC---AAAGTATGCA----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cerAty1.NW_012002954v1     13460294 27 +  21915920 I
e macNem1.NW_012015021v1      4935422 27 -  30496662 I
e rheMac8.chr3              160676852 27 - 185818997 I
e cebCap1.NW_016107322v1     13916396 12 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1      9147964 10 -   9889416 I
e colAng1.NW_012120598v1      5236463 27 -  13750039 I
e manLeu1.NW_012103476v1      3465184 651 +   7543664 I
e chlSab2.chr2               19961749 27 -  90373283 I

a score=24597.000000
s hg38.chr21_GL383579v2_alt     99185 17 +    201197 ---TTTTATGACTTAATTTA
s panTro5.chr21               8717532 15 +  33445071 -----TTATGACTTAATTTA
i panTro5.chr21             C 0 I 2
s panPan2.chr21              22256739 15 +  46275980 -----TTATGACTTAATTTA
i panPan2.chr21             C 0 I 2
s gorGor5.CYUI01015003v1      8239310 15 -  13858734 -----TTATGACTTAATTTA
i gorGor5.CYUI01015003v1    C 0 I 2
s nomLeu3.chr25               9264489 15 +  32716333 -----TTATGACTTAATTTA
i nomLeu3.chr25             C 0 I 308
s macFas5.chr3              167311526 14 - 192294377 ---TTTTATGAATTATC---
i macFas5.chr3              I 1 C 0
s calJac3.chr21              26489800 14 +  50472720 ---TTTTATGACTTATC---
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685841 14 +  13128814 ---TTGTATGACTTATC---
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916408 14 -  14377064 ---TTTTATGACTTATC---
i cebCap1.NW_016107322v1    I 12 C 0
s aotNan1.NW_018487195v1      9147974 14 -   9889416 ---TTTTATGACTTATC---
i aotNan1.NW_018487195v1    I 10 C 0
s otoGar3.GL873528           24860560 17 -  38779656 ---TTTTGTGACTTAATTTA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2355417 15 +   3081153 TTTTATCACGATTTA-----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cerAty1.NW_012002954v1     13460294 27 +  21915920 I
e macNem1.NW_012015021v1      4935422 27 -  30496662 I
e rheMac8.chr3              160676852 27 - 185818997 I
e canFam3.chr31              18030899 800 +  39895921 I
e colAng1.NW_012120598v1      5236463 27 -  13750039 I
e manLeu1.NW_012103476v1      3465184 651 +   7543664 I
e chlSab2.chr2               19961749 27 -  90373283 I

a score=2963449.000000
s hg38.chr21_GL383579v2_alt     99202 306 +    201197 --TCTTTTTAATAAAAAGGACAAAA-GTAAGTAAATAAATAATGATGAT-AAAATAATTACTCTGTGATTATTATAGTAATGTGTTACCTTACTGAGATTTATCTTCAAATATTAGCTGAAGGGACAAAGAAGTGGATGATTAGTCCAGATGT-AG-TATAAAGCTGCAGGTTAAAAAGAAAGTGAAAATGGTAGGAAGAGGTAGCAGTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGCAGTGCTTTCGGT-AACACATATT--------TTCTTTG----TTTATTTGTTATTATTCCCATACAGTCCAACTAGTTCAGTT
s panTro5.chr21               8717549 306 +  33445071 --TCTTTTTAATAAAAAGGACAAAA-GTAAGTAAATAAATAATGATGAT-AAAATAATTACTCTGTGATTATTATAGTAATGTGTTACCTTACTGAGATTTATCTTCAAATATTAGCTGAAGGGACAAAGAAGTGGATGATTAGTCCAGATGT-AG-TATAAAGCTGCAGGATAAAAAGAAAGTGAAAATGGTAGGAAGAGGTAGCAGTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGCAGTGCTTTCGGT-AACACATATT--------TTCTTTG----TTTATTTGTTATTATTCCCATACAGTCCAACTAGTTCAGTT
i panTro5.chr21             I 2 C 0
s panPan2.chr21              22256756 305 +  46275980 --TCTTTTTAATAAAAC-GACAAAA-GTAAGTAAATAAATAATGATGAT-AAAATAATTACTCTGTGATTATTATAGTAATGTGTTACCTTACTGAGATTTATCTTCAAATATTAGCTGAAGGGACAAAGAAGTGGATGATTAGTCCAGATGT-AG-TATAAAGCTGCAGGATAAAAAGAAAGTGAAAATGGTAGGAAGAGGTAGCAGTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGCAGTGCTTTCGGT-AACACATATT--------TTCTTTG----TTTATTTGTTATTATTCCCATACAGTCCAACTAGTTCAGTT
i panPan2.chr21             I 2 C 0
s gorGor5.CYUI01015003v1      8239327 304 -  13858734 --TCTTTTTAATAAAAA-GACAAAA-GTAAGTAAATAAATAATGATGAT-AAAATAATTACTCTGTGATTATTATAGTAATGTGTTACCTTACTGAGATTTATCTTCAAATGTTAGCTGAAGGGACAAAGAAGTGGATGATTAGTCCAGATGT-AG-TATAAAGCTGCAGGATAAAAA-AAAGTGAAAATGGTAGGAAGAGGTAGCAGTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGCAGTGCTTTCGGT-AACACATATT--------TTCTTTG----TTTATTTGTTATTATTCCCATACAATCCAACTAGTTCAGTT
i gorGor5.CYUI01015003v1    I 2 C 0
s nomLeu3.chr25               9264812 302 +  32716333 --TCTTTTTAATAAAAAGGACAAAA-GTAAGTAAATAAATGATGATGGT-AAAATAATTACTCTGTGATTATTATAGTAATGTGTTACCTTACTGAGATTTATCTTCAAATATTAGCTGAAGGGACAAAGAAGTGGATGATTAGTCCAGATGT-AG-TATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTAGGAAGAGGTAGCAGTG-------AGGGTAGAAATGAGATGAGGTATCCTGGGTGCAATGCTTTCGGT-AATACATATT--------TTC--------TTTATTTGTTATTATTCTCATACAGTCCAACTAGTTCAGTT
i nomLeu3.chr25             I 308 C 0
s rheMac8.chr3              160676879 299 - 185818997 --TCTTTTTAATAAAAAGGACAAAA-GTAAATAA-------ATGATGAT-AAAATAATTACTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAGTATTAGCTGAGGGGACTAGCAAGTGGATGATTAGTCCAGATGT-AG-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATCGTTGGAAGAGGTAGCATTG-------AGGGTAGAACTGATATGAAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCCTATAAAATTCAACTAGTTCGGTT
i rheMac8.chr3              I 27 C 0
s macFas5.chr3              167311540 295 - 192294377 --TCTTTTTAATAAAAAGGACAAAA-G----TAA-------ATGATGAT-AAAATAATTACTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAATATTAGCTGAGGGGACTAGCAAGTGGATGATTAGTCCAGATGT-AG-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTAGGAAGAGGTAGCATTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCCTATAAAATTCAACTAGTTCGGtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935449 299 -  30496662 --TCTTTTTAATAAAAAGGACAAAA-GTAAATAA-------ATGATGAT-AAAATAATTACTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAATATTAGCTGAGGGGACTAGCAAGTGGATGATTAGTCCAGATGT-AG-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTTGGAAGAGGTAGCATTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCCTATAAAATTCAACTAGTTGGGTT
i macNem1.NW_012015021v1    I 27 C 0
s cerAty1.NW_012002954v1     13460321 302 +  21915920 --TCTTTTTAATAAAAAGGACAAAA-GTAAGTAA----ATGATGATGAT-AAAATAATTACTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAATATTAGCTGAGGGGACTAGCAAGTGGATGATTAGTCCAGATGT-AG-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTAGGAAGAGGTAGCACTG-------AGGGTAGAACTGAGATGGAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCCTATAAAATTCAACTAGTTCGGTT
i cerAty1.NW_012002954v1    I 27 C 0
s chlSab2.chr2               19961776 302 -  90373283 --TCTTTTTAATAAAAAGGACAAAA-GTAAATAA----ATGATGATGAT-AAAATAATTACTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAATATTAGCTGAGGGGACTAACAAGTGGATGATTAGTCCAGATGC-AG-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTAGGAAGAGGTAGCATTG-------AGGGTAGAATTGAGATGAAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCCTATAAAATTCAACTAGTTCGTTT
i chlSab2.chr2              I 27 C 0
s manLeu1.NW_012103476v1      3465835 301 +   7543664 --TCTTTTTAATAAAAAGGACAAAA-GTAAATAA----ATGATGATGAT-AAAATAATTACTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAATATTAGCTGAGGGGACTAGCAAGTGGATGATTAGTCCAGATGT--G-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTAGGAAGAGGTAGCATTG-------AGGGTAGAACTGAGATGAAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCATATAAAATTCAACTAGTTCGGTT
i manLeu1.NW_012103476v1    I 651 C 0
s colAng1.NW_012120598v1      5236490 302 -  13750039 --TCTTTTTAATAAAAAGGACAAAA-GTAAATAA----ATCATGATGAT-AAAATAATTAGTCTGTGATTATTATAATAATGTGTTACCTTACTAAGATTTATCTTCAAATATTAGCTGAGGGGACTAACAAGTGGATGATTAGTCCAGATGT-AG-CATAAAGCTGCAGGATAAAAAGAAAGTGAAGATGGTAGGAAGAGGTAGCATTG-------AGGGTAGAATTGAGATGAAGTATCCTGAGTGTAGTGGTTTTGGT-AACACATATT--------TTCTTTG----TTTACTTGTTATTATTCCTATAAAATTCAACTAGCTCAGTT
i colAng1.NW_012120598v1    I 27 C 0
s calJac3.chr21              26489814 298 +  50472720 --TCTTTTTAATAGAAAGGATAAAA-GTAAGTAAA-AAATGATTATGATAAAAACAATTATTCTGGGATTATTA---TAATGTGTTATCTTACTCAGATTTATCTTCAAATATTAGCTGAGAGGACTAAGAAATGGATGATTAGTTCAACTTT-AA-TAAAAAA----GGACTAAAAAGAGAGTGAAGATGGTAGGAAGAGGTACCAGTG-------AGGGTAGAATTGAGATGAAGTGCCTTGAGTGCAGTGGTTTTGGT-AACATACATT--------TTCTTAG----TTTATTT-TTCTTATTCCCATAAAATCCAGCTTGTTCAGtt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8685855 297 +  13128814 --TCTTTTTAATAAAAAGGATAAAA-GTAAGTAAATAAATGAGTACGAT-AAAACAATTATTCTGGGATTATTA---TAATATGTTATCTTACTCAGATTTATCTTCAAATATTAGCTAAGAGGACTAAGAAATGGATGATTAGTCCAACTGT-AA-TACAAAA----GGATTAAAAAGAAAGTGAAGATGGTA-GAAGAGGTACCAGTG-------AGGGTAGAATTGAGATGAAGTACCTTGAGTGCAATGGTTTTGGT-GACACACATT--------TTCATTG----TTTATTT-TTCTTATTCCCATAAAATCCAGCTAGTTCAGTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916422 298 -  14377064 --TC-TTTTAATAAAAAGGATAAAA-GTAAGTAAATAAATGATTATGATAAAGACAATTATTCTGGGATTATTA---TAATGTGTTATCTTACTCAGATTTATCTTCAAATATTAGCTGAGAGGACTAAGAAATGGATGATTAGTCCAACTGT-AA-TACAAAT----GGACTAAAAAGAAAGTGAAGATGGTAGGAAGAGGTACCAGTG-------AGGGTAGAATTGAGATGAAGTACCTTGAGTGCAGTGGTTTTGGT-AACACACATT--------TTCTTTG----TTTATTT-TTCTTATTCCCATAAAACCCAGCTAGTTCAGTT
i cebCap1.NW_016107322v1    C 0 I 125
s aotNan1.NW_018487195v1      9147988 300 -   9889416 --TCTTTTTAATAAAAAGGATAAAA-GTAAGTAAATAAATGATTATGATAAAAATAATTATTCTGGGATTATTA---TAATGTGTTATCTTACTCATATTTATCTTCAAATATTAGCTGAGAGGACTAAGAAATGGATGATTAGTCCAACTGT-AA-TACAAAG----GGACTAAAAAGAAAGTGAAGATGGTAGGAAGAGGTACCAGTG-------AGGGTAGAATTGAGATGAAGTACCTTGAGTGCAGTGGTTTTGGTGAACACACATT--------TTGTTTG----TTTATTT-TTCTTATTCCCATAAAATCCAGCTAGTTCAGTT
i aotNan1.NW_018487195v1    C 0 I 165
s otoGar3.GL873528           24860577 294 -  38779656 ----------TTCAAAAGGAGAAAATGCAAGTAAATCAGTGATGATGAT---ACTACTTCTTCTGTGATTATTATAGTAATTTGTCACCCTACTCAGATTTATCTTCTACTATTAGCTGAAAGAACTAGGCAGTGCATGGTTATTCTAGCCGCCAC-TGCAAAGCTGAGGGGCAGAGAGAAAGTGAATATGGGCGGCAGGGGCAGCAGCA-------ATGGGAGGTTTGAGACAAACTATCCTTAATGCAGCAGCTTTGAT-ATTGGATATT--------TTCCTCT--GCTTGATTTGTTATTATTCCTTCAAAACTCAGTTATT------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2355432 313 +   3081153 ACTCTTTGTGAAAAGAAAAGGAAAA-AAAATTATGAAAATAGCAACAATTATTATAATGATAATGTGAT--------TAATCTGTAAACATACTGAGGTTTGTCTTCAAATACTGGCTGAGAAAAATAAA----GGACTGTTCTTTCAGCTGC-AGACATAAAACCATAGGATAGAAAGAAAGTGAAAGCAATAGAAAGAGGCAGCAGTGCCTGGAAGGAGTAAA----AGATAACTTACACTTAGAGAAACAGTTTTATT-AATGGATGTTTTGATTTGTTTTTTGGTGTTTTTTTTGCTATTATTCTCACTAAAAGCATTAAGTTCACTT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I

a score=20457.000000
s hg38.chr21_GL383579v2_alt     99508 13 +    201197 G------TATTTTTTTTTA-
s panTro5.chr21               8717855 16 +  33445071 G---TTTTTTTTTTTTTTT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257061 17 +  46275980 G--TTTTTGTTTTTTTTTT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239631 14 -  13858734 G-----TATTTTTTTTTTA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265114 14 +  32716333 G-----TATTTTTTTTTTA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677178 16 - 185818997 G---TTTTTTTTTTTTTTA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167311835 19 - 192294377 gtttttttttttttttttA-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935748 16 -  30496662 G---TTTTTTTTTTTTTTA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460623 15 +  21915920 G----TTTTTTTTTTTTTA-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962078 14 -  90373283 G-----TTTTTTTTTTTTA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466136 13 +   7543664 G------TTTTTTTTTTTA-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5236792 13 -  13750039 T------TTTTTTTCTTTA-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490112  9 +  50472720 ---------tttt-tatta-
i calJac3.chr21             C 0 I 169
s saiBol1.JH378168            8686152 10 +  13128814 ---------TTTTCCATta-
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24860871 13 -  38779656 ------TTATTTGTTTTGA-
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2355745  6 +   3081153 --------------GTCTAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cebCap1.NW_016107322v1     13916720 125 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1      9148288 165 -   9889416 I

a score=40833.000000
s hg38.chr21_GL383579v2_alt     99521 7 +    201197 -AAGATAG
s panTro5.chr21               8717871 7 +  33445071 -AAGATAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257078 7 +  46275980 -AAGATAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239645 7 -  13858734 -AAGATAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265128 7 +  32716333 -AAGATAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677194 7 - 185818997 -AAGATAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167311854 7 - 192294377 -AAGATAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935764 7 -  30496662 -AAGATAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460638 7 +  21915920 -AAGATAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962092 7 -  90373283 -AAGATAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466149 7 +   7543664 -AAGATAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5236805 7 -  13750039 -AAGATAG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8686162 7 +  13128814 -tatatat
i saiBol1.JH378168          C 0 I 353
s otoGar3.GL873528           24860884 7 -  38779656 -AAGAAAA
i otoGar3.GL873528          C 0 I 3
s dasNov3.JH578070            2355751 7 +   3081153 AAAGAAG-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cebCap1.NW_016107322v1     13916720 125 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1      9148288 165 -   9889416 I
e calJac3.chr21              26490121 169 +  50472720 I

a score=7847.000000
s hg38.chr21_GL383579v2_alt     99528 1 +    201197 A
s panTro5.chr21               8717878 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257085 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239652 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265135 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677201 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167311861 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935771 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460645 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962099 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466156 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5236812 1 -  13750039 A
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8686522 1 +  13128814 a
i saiBol1.JH378168          I 353 C 0
s otoGar3.GL873528           24860894 1 -  38779656 A
i otoGar3.GL873528          I 3 C 0
s dasNov3.JH578070            2355758 1 +   3081153 G
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cebCap1.NW_016107322v1     13916720 125 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1      9148288 165 -   9889416 I
e calJac3.chr21              26490121 169 +  50472720 I

a score=17426.000000
s hg38.chr21_GL383579v2_alt     99529 3 +    201197 TAG
s panTro5.chr21               8717879 3 +  33445071 TAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257086 3 +  46275980 TAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239653 3 -  13858734 TAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265136 3 +  32716333 TAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677202 3 - 185818997 TAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167311862 3 - 192294377 TAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935772 3 -  30496662 TAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460646 3 +  21915920 TAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962100 3 -  90373283 TAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466157 3 +   7543664 TAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5236813 3 -  13750039 TAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490290 3 +  50472720 TAT
i calJac3.chr21             I 169 C 0
s saiBol1.JH378168            8686523 3 +  13128814 tat
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24860895 3 -  38779656 CAT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2355759 3 +   3081153 TGG
i dasNov3.JH578070          C 0 I 3
e micMur3.chr31              23680609 8438 +  47401472 I
e cebCap1.NW_016107322v1     13916720 125 -  14377064 I
e canFam3.chr31              18030899 800 +  39895921 I
e aotNan1.NW_018487195v1      9148288 165 -   9889416 I

a score=2384274.000000
s hg38.chr21_GL383579v2_alt     99532 226 +    201197 CTGTGCTTCAGTATCTGGACCAGATAGAATCTTTAAGTTTC------AAAT------TATTTTAATGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCatatatgat-aaaatatatacttaatataaatacatttcataaa-------aatatgtaACTGAATATCCATGTGACAAAATTTACAAAAGAAAAAACTGTATTCATATTTTAACAT-------GTATTGAAGTG-ATTATAATTTACT
s panTro5.chr21               8717882 226 +  33445071 CTGTGCTTCAGCATCTGGACCAGATAGAATCTTTAAGTTTC------AAAT------TATTTTAATGATGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCatatatgat-aaaatatatacttaatataaatacatttcataaa-------aatatgtaACTGAATATTCATGTGACAAAATTTACAAAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257089 226 +  46275980 CTGTGCTTCAGTATCTGGACCAGATAGAATCTTTAAGTTTC------AAAT------TATTTTAATGATGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCatatatgat-aaaatatatacttaatataaatacatttcataaa-------aatatgtaACTGAATATTCATGTGACAAAATTTACAAAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATATACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239656 226 -  13858734 CTGTGCTTCAGTATCTGGACCAGATAGAATCTTTAAGTTTC------AAAT------TATTTTAATGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCatatatgat-aaaatatatacttaatataaatagatttcataaa-------aatatgtaACTGAATATTCATGTGACAAAATTTATAAAAGAAAAATCTGTATTCGTATTTTAACAT-------GTATTGAAGTG-ATTATAATTTACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265139 226 +  32716333 CTGTGCTTCAGTATCTGGACCAGATAGTATCTTTAAGTTTC------AAAT------TATTTTAATGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-AAAATATGTACTTAATATAAATAAATTTCATAAA-------AATATGTAACTGAATATTCATATGACAAAATTTACAAAAGAAAAATCTGTATTCATATTTTAACAC-------GTATTAAAGTG-ATTATAATTTACC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677205 225 - 185818997 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTACGGTTC------AACT------TATTTTAACGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-GAAATATATACTTAATATACATACATTTAATACA-------AATATGTAACTGAATATTCATATGACAAAATGTAC-AAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167311865 225 - 192294377 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTACGGTTC------AACT------TATTTTAACGGTGA-CTTATGCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-GAAATATATACTTAATATACATACATCTAATACA-------AATATGTAACTGAATATCCATATGACAAAATGTAC-AAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4935775 225 -  30496662 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTACGGTTC------AACT------TATTTTAACGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-GAAATATATACTTATTATACATACATTTAATACA-------AATATGTAACTGAATATTCATATGACAAAATGTAC-AAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460649 225 +  21915920 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTAAGGTTC------AACT------TATTTTAATGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-GAAATATATACTTAATATACATACATTTAATACA-------AATATGTAACTGAATATTCATATGACAAAATGTAC-AAACAAAAATCTGTATTCATATTTTAACGT-------GTATTAAAGTG-ATTATAATTTACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962103 225 -  90373283 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTAAGGTTC------AACT------TATTTTAATGGTGA-TTTATTCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-GAAATATATACTTAATATACATACATTTAATACA-------AATATGTAACTGATTATTCATATGACAAAATGTAC-AGAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466160 225 +   7543664 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTAAGGTTC------AACT------TATTTTAACGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCATATATGAT-GAAATATATACTTAATATACATACATTTAATACA-------AATATGTAACTGAATATTCATATGACAAAATGTAC-AAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5236816 225 -  13750039 CTGTGCTTCAGTATCTGGACCAGATAATATCTTTAAGGTTC------AACT------TATTTTAATGGTGA-TTTATGCATGAAAAGACTAAATGTTCTATACTCCatatatgat-gaaatatatacttaatatatatacatttaataca-------aatatgtaACTGATTATTCATATGACAAAATGTAT-GAAGAAAAATCTGTATTCATATTTTAACAT-------GTATTAAAGTG-ATTATAATTTACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490293 233 +  50472720 CTGTACTTTAGTATCTGGACCAGATAGTATCTTTAAGGTTC------ACAT------TATTTTAATGGTAA-TTTATGCATGAAAATATTAAACGTTCTATACCTCATATATAAT-AAAATGTATACTTAATATAAATACATTTACCAAA-------AATATGTAACTGAATATTCACATGACAAAATTTATAAAAGAAAAATCTGTATTTATATTTGAAAGTGATTAAAGTATTCAAGTG-ATTATAATTCAGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8686526 233 +  13128814 CTGTGCTTTAGTGTCTGGACCAGATAGTATCTTTAAGGTTC------ACAT------CATTTTAATGGTAG-TTTATGCAAGAAAAGACTAAATGTTGTATACCTCATATATGAT-AAAATATATACTTAATATATATACGTTTACTAAA-------AATATGTAACTGAATATTCATATGACAAAATTTATAAAAGAAAAATCTGTATTTATATTTGAAAGTGATTAAAGTATTCAAGTG-ATTATAATTCACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13916845 233 -  14377064 CTGTGCTTTAGTATTTGGATCAGATAGTATCTTTAAGGTTC------ACAT------TATTTTAATGGTAA-TTTATGCATGAAAAGACTAAATGTTCTATACCTCATATATGAT-AAAATGTATACTTAATATAAATACATTTACTAAA-------AATATGTAACCGAATACTCATACAACAAAATTTATAAAAGAAAAATCTGTATTTATATTTGAAAGTGATTCAAGTATTCAAATG-ATTATAATTCATT
i cebCap1.NW_016107322v1    I 125 C 0
s aotNan1.NW_018487195v1      9148453 232 -   9889416 CTGTGCTTTAGTATCTGGATCAGATAGTATTTTTAAGATTC------ACAT------TATTTTAATGGTAA-TTTATGCATGAAAAGACTAAATGTTCTATACCTCATATATGAT-AAAATGTATACTTAACATAAATACATTTACTAAA-------AATATGTAACTGAATATTCATATGACAAAATTTATAAAAGAAAAATCTGTATTTATATTTGAAAGTGATTAAAGTATTCAAGTG-ATTA-AACTCACT
i aotNan1.NW_018487195v1    I 165 C 0
s otoGar3.GL873528           24860898 233 -  38779656 CTATACATCAGCGTCTGGCCCAGATAGCATCtttaaaattttaacaataat------tatttaaatGGTGG-TTTATGCATGGAGAGATTCCTTGTTTTATATTTCCTGtataat-aaaatatatatttaatatgaatacatttaaaata-------CATGTGTAACTGAATATTCATGTAAGAAAGTTTATTAAATGGAAGTCTGCATTCATATTTTAAGGT-------ATAGCaaaaaatattataatttatt
i otoGar3.GL873528          C 0 I 811
s dasNov3.JH578070            2355765 233 +   3081153 CTATTTTTTAGAACTGGGCCC--------TCTTTAAAGATC------TAATAGGAAGTAATTTAATGGTGATTTTATGTACAGAAAGCATCACTTCTTCATAATCCTTGTATGATAAAAATATATGTTTAATATTAACATATTTCATACACAGTTGTAATATATAAATGAATATTTAAATGCCTGTATTTGCTTAAAAAAAGTATGTTCTCATTTTTTAAAAT-------GCTCTAAAGTA-GTTATACATTATT
i dasNov3.JH578070          I 3 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I

a score=19149.000000
s hg38.chr21_GL383579v2_alt     99758 2 +    201197 TA
s panTro5.chr21               8718108 2 +  33445071 TG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257315 2 +  46275980 TG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239882 2 -  13858734 TA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265365 2 +  32716333 TA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677430 2 - 185818997 TA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312090 2 - 192294377 TA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936000 2 -  30496662 TA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460874 2 +  21915920 TA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962328 2 -  90373283 TA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466385 2 +   7543664 TA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237041 2 -  13750039 TA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490526 2 +  50472720 TA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8686759 2 +  13128814 TA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917078 2 -  14377064 TA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9148685 2 -   9889416 TA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2355998 2 +   3081153 CA
i dasNov3.JH578070          C 0 I 1539
e micMur3.chr31              23680609 8438 +  47401472 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=-21226.000000
s hg38.chr21_GL383579v2_alt     99760 4 +    201197 GGG-G
s panTro5.chr21               8718110 4 +  33445071 GGG-G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257317 4 +  46275980 GGG-G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239884 4 -  13858734 GGG-G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265367 4 +  32716333 GGG-G
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677432 4 - 185818997 CAT-T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312092 4 - 192294377 CAT-T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936002 4 -  30496662 CAT-T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460876 4 +  21915920 CAT-T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962330 4 -  90373283 CAT-T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466387 4 +   7543664 CAT-T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237043 4 -  13750039 TGT-T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490528 5 +  50472720 GGGGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8686761 5 +  13128814 GGGGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917080 5 -  14377064 GGGGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9148687 5 -   9889416 GGGAT
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2356000 1539 +   3081153 I
e canFam3.chr31              18030899 800 +  39895921 I
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=24752.000000
s hg38.chr21_GL383579v2_alt     99764 2 +    201197 TT
s panTro5.chr21               8718114 2 +  33445071 TT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257321 2 +  46275980 TT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239888 2 -  13858734 TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265371 2 +  32716333 TT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677436 2 - 185818997 TT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312096 2 - 192294377 TT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936006 2 -  30496662 TT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460880 2 +  21915920 TT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962334 2 -  90373283 TT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466391 2 +   7543664 TT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237047 2 -  13750039 TT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490533 2 +  50472720 TT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8686766 2 +  13128814 TT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917085 2 -  14377064 TT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9148692 2 -   9889416 TT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18031699 2 +  39895921 TT
i canFam3.chr31             I 800 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2356000 1539 +   3081153 I
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=143032.000000
s hg38.chr21_GL383579v2_alt     99766 11 +    201197 TGCGGATTAAC
s panTro5.chr21               8718116 11 +  33445071 TGCGGATTAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257323 11 +  46275980 TGCGGATTAAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239890 11 -  13858734 TGTGGATTAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265373 11 +  32716333 TGTGGATTAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677438 11 - 185818997 TGTGGATTAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312098 11 - 192294377 TGTGGATTAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936008 11 -  30496662 TGTGGATTAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460882 11 +  21915920 TGTGGATTAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962336 11 -  90373283 TGTGGATTAAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466393 11 +   7543664 TGTGGATTAAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237049 11 -  13750039 TGTGGATTAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490535 11 +  50472720 TGTGGATTAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8686768 11 +  13128814 TGTGGATTAAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917087 11 -  14377064 TGTGGATTAAC
i cebCap1.NW_016107322v1    C 0 I 23
s aotNan1.NW_018487195v1      9148694 11 -   9889416 TGTGGATTAAC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18031701 11 +  39895921 TGTGGATTTGT
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2357539 11 +   3081153 TATGGATTAAC
i dasNov3.JH578070          I 1539 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=84723.000000
s hg38.chr21_GL383579v2_alt     99777 14 +    201197 AAAGGAGTACACAA
s panTro5.chr21               8718127 14 +  33445071 AAAGGAGTACACAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257334 14 +  46275980 AAAGGAGTACACAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239901 14 -  13858734 AAAGGAGTACACAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265384 14 +  32716333 AAAGGAGTACACAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677449 14 - 185818997 AAAGGAGTACACAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312109 14 - 192294377 AAAGGAGTACACAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936019 14 -  30496662 AAAGGAGTACACAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460893 14 +  21915920 AAAGGAGTACACAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962347  6 -  90373283 AAAGGA--------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466404 14 +   7543664 AAAGGAGTACACAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237060 14 -  13750039 AAAGGAGTACACAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490546 14 +  50472720 CAGGGAGTACAAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8686779 14 +  13128814 CAGGGAGTACAAAT
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9148705 14 -   9889416 CAGGGAGTATAAAC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18031713 13 +  39895921 AAAGAACTGGAAT-
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2357550 14 +   3081153 AGAGAAATTGGCAC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e cebCap1.NW_016107322v1     13917098 23 -  14377064 I
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=473505.000000
s hg38.chr21_GL383579v2_alt     99791 48 +    201197 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGGTACAAATAAGCA
s panTro5.chr21               8718141 48 +  33445071 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGGTACAAATAAGCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257348 48 +  46275980 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGGTACAAATAAGCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239915 48 -  13858734 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGGTACAAATAAGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265398 48 +  32716333 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGGTACAAATAAGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677463 48 - 185818997 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGATACAAATAAGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312123 48 - 192294377 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGATACAAATAAGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936033 48 -  30496662 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGATACAAATAAGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460907 48 +  21915920 GTAAACTTTCTTTATATTACTATATTTTAGTGTAGATACAAATAAGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962353 48 -  90373283 GTAAACTTTCTTCACATTACTATATTTTAGTGTAGATACAAATAAGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466418 48 +   7543664 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGATACAAATAAGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237074 48 -  13750039 GTAAACTTTCTTTACATTACTATATTTTAGTGTAGATACAAATAAGTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490560 48 +  50472720 GTAAACTTTCTTTATATTACTATATTTTAGTATAGGTACAAATAAGCG
i calJac3.chr21             C 0 I 4
s saiBol1.JH378168            8686793 44 +  13128814 GTAAA----CTTTATATTACTATATTTTAGTGTAGGTACAAATAAACG
i saiBol1.JH378168          C 0 I 325
s cebCap1.NW_016107322v1     13917121 48 -  14377064 GTAAACTTTCTTTATATTACTATATTTTAGTATAGGTACAAATAAACA
i cebCap1.NW_016107322v1    I 23 I 4
s aotNan1.NW_018487195v1      9148719 48 -   9889416 GTAAACTTTCTTTATATTACTATATTTCAGTATAGGTACATATAAGCG
i aotNan1.NW_018487195v1    C 0 I 4
s canFam3.chr31              18031726 39 +  39895921 GGGAGCTTTCTTTTCCCAATAA---------ATAGTTCAAAAGGGGTG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2357564 43 +   3081153 GTGAAATTTATCT---TTTTAATAATTCAGAAAGAGTGCTAATATA--
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=33963.000000
s hg38.chr21_GL383579v2_alt     99839 5 +    201197 CAG----TT
s panTro5.chr21               8718189 9 +  33445071 TAGTTTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257396 9 +  46275980 TAGTTTATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239963 9 -  13858734 TAGTTTATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265446 9 +  32716333 TGGTTTATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677511 9 - 185818997 TGGTTTATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312171 9 - 192294377 TGGTTTATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936081 9 -  30496662 TGGTTTATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13460955 9 +  21915920 CGATTTATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962401 9 -  90373283 TGGTTTATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466466 9 +   7543664 TGATTTATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237122 9 -  13750039 TGGTTTATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490612 5 +  50472720 ----CTATT
i calJac3.chr21             I 4 C 0
s saiBol1.JH378168            8687162 5 +  13128814 ----cggcc
i saiBol1.JH378168          I 325 C 0
s cebCap1.NW_016107322v1     13917173 5 -  14377064 ----GAATT
i cebCap1.NW_016107322v1    I 4 C 0
s aotNan1.NW_018487195v1      9148771 5 -   9889416 ----CTATT
i aotNan1.NW_018487195v1    I 4 C 0
s canFam3.chr31              18031765 5 +  39895921 ----CTTTT
i canFam3.chr31             C 0 I 6
e micMur3.chr31              23680609 8438 +  47401472 I
e dasNov3.JH578070            2357607 0 +   3081153 C
e otoGar3.GL873528           24861131 811 -  38779656 I

a score=639484.000000
s hg38.chr21_GL383579v2_alt     99844 64 +    201197 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---GAATTTTT
s panTro5.chr21               8718198 64 +  33445071 TATTTTTATTTTTTAGAAAATGCTTATCCTTTTAGAAATGCT--CATTATTTATCTGA---GAATTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257405 64 +  46275980 TATTTTTATTTTTTAGAAAATGCTTATCCTTTTAGAAATGCT--CATTATTTATCTGA---GAATTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8239972 64 -  13858734 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTATAAATGCT--CATTATTTATCTGA---GAATTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265455 64 +  32716333 TATTTTTATTATTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---GAATTTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677520 64 - 185818997 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---TAATTTTT
i rheMac8.chr3              C 0 I 329
s macFas5.chr3              167312180 64 - 192294377 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---TAATTTTT
i macFas5.chr3              C 0 I 309
s macNem1.NW_012015021v1      4936090 64 -  30496662 TATTTTTACTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---TAATTTTT
i macNem1.NW_012015021v1    C 0 I 306
s cerAty1.NW_012002954v1     13460964 64 +  21915920 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---TAATTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962410 64 -  90373283 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTACTTATCTGA---TAATTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466475 64 +   7543664 TATTTTTATTTTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---TAATTTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237131 64 -  13750039 TATTTTTATTCTTTAGAAAATGCTTATTCTTTTAGAAATGCT--CATTATTTATCTGA---TAATTTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490617 63 +  50472720 TATTTATAGTTTTTAGAAAATGCTTA-TTTTTTAGAAATGTT--TATTATTTATCTGA---GAATTTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8687167 62 +  13128814 tatttttatttttttttaaatGCTT--TTTTTTAGAAATGTT--CATTACTTATCTGA---GAATTTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917178 64 -  14377064 TATTTTTATTTTTTAGAAAATGCTTACTTTTTTAGAAATGTT--CATTATTTATCTGA---TAATTTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9148776 62 -   9889416 TATTTTTACTTTTTAGAAAATGCTTA-TTTTTTAGAAATGTT--CA-TATTTATCTGA---GAATTTTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24861942 62 -  38779656 TATTTTTAATTTTGAGAAAATGTTTATGTGTTTAG-AATATT--CACCGTTTCTCATC---ATATTGT-
i otoGar3.GL873528          I 811 C 0
s canFam3.chr31              18031776 56 +  39895921 TGTttttgttttgt------tttgttttgttttAGAAAATATGGCGTTGTTTCTCTGG---GAAT----
i canFam3.chr31             I 6 I 2
s dasNov3.JH578070            2357607 38 +   3081153 ---------TTTTTAGTAAATATTT-------------------CACTATTTCTCTGGGATGAATG---
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I

a score=1432425.000000
s hg38.chr21_GL383579v2_alt     99908 139 +    201197 AAAAAATGCT-CTGGAAGGCGCA----TAGGTTTCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTCTGTTGTTAAGTCTTTATACTTATTCATTTTAGTTCACCTTTTGGTTAAAA
s panTro5.chr21               8718262 139 +  33445071 AAAAAATGCT-CTGGAAGGCGCA----TAGGTTTCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTCTGTTGTTAAGTCTTTATACTTATTCATTTTAGTTCACCTTTTGGTTAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257469 139 +  46275980 AAAAAATGCT-CTGGAAGGCGCA----TAGGTTTCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTCTGTTGTTAAGTCTTTACACTTATTCATTTTAGTTCACCTTTTGGTTAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8240036 139 -  13858734 TTAAAATGCT-TTGGAAGGCGCA----TAGGTTTCAGAAAGCACTGGCTTCTCATGCTTTAGTTATGCAAGTTTCTA-AGGGGAAGTAATTTTTCTGTTGTTAAGTCTTTATACTTATTCATTTTAGTTCACCTTTTGGTTAAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265519 133 +  32716333 TAAAAATGCT-CTGGAAGGCGTA----TAGGTTTCAGAAAGCTCTGGT------CGCTTTATTTATCCAACTTTCTA-AGGCGAAGTAATTTTTCTGTTGTTAAGTCTTAATATTTATCCGTTTTAGTTCACCTTTTCGTTAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160677913 136 - 185818997 aaaaaaaGCT-CTGGAATGCTCA----TAGGTTTCAGAAAGCTCTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTC---TGTTAAGTCTTAATACTTTTCCATTTTAGTTCACCTTTTCATTAAAA
i rheMac8.chr3              I 329 C 0
s macFas5.chr3              167312553 136 - 192294377 aaaaaaTGCT-CTGGAATGCTCA----TAGGTTTCAGAAAGCTCTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTC---TGTTAAGTCTTAATACTTTTCCATTTTAGTTCACCTTTTCATTAAAA
i macFas5.chr3              I 309 C 0
s macNem1.NW_012015021v1      4936460 136 -  30496662 aaaaaaaGCT-CTGGAATGCTCA----TAGGTTTCAGAAAGCTCTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTC---TGTTAAGTCTTAATACTTTTCCATTTTAATTCACCTTTTCATTAAAA
i macNem1.NW_012015021v1    I 306 C 0
s cerAty1.NW_012002954v1     13461028 136 +  21915920 TTTAAATGCT-CTGGAATGCTCA----TAGGTGTCAGAAAGCTCTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTC---TGTTAAGTCTTAATACTTTTCCATTTTAGTTCACCTTTTCATTAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962474 136 -  90373283 AAAAAATGCT-CTGGAATACTCA----TAGGTTTCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-CGGGGAAGTAATTTTTC---TGTTAAGTCTTAATACTTTTCCATTGTAGTTCACCTTTTCATTAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466539 136 +   7543664 TTAAAATGCT-CTGGAATGCTCA----TAGGTGTCAGAAAGCTCTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTC---TGTTAAGTCTTCATACTTTTCCATTTTAGTTCACCTTTTCATTAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237195 136 -  13750039 TAAAAATGCT-CTGGAATGCTCA----TAGGTTTCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCCAAGTTTCTA-AGGGGAAGTAATTTTTC---TGTTAAGTCTTAATACTTATCCATTTTAGTTCACCTTTTCATTAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490680 143 +  50472720 TAAAAATGTT-CTGGAATGCACAAAATTAGGTATCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCAGACTTTCTA-AGGCAAAATAATTTTTCTATGGTTAAGTCCTTATGCTTATCCATTTTAGTTCACCTTTTTGTTAAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8687229 139 +  13128814 AGAAAATGTT-CTGGAATGCACG----TAGGTATCAGAAAGCACTGTCTTCTCATGCATTAGTTATCAGACTTTCTA-AGGGGAAATAATTTTTCTATCATTAAGTCCTTACGCTTATCCATTTTAGTTCACCTTTTTGTTAAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917242 139 -  14377064 AAAAAATGTT-CTGGAACGTACA----TAGGTATCAGGAAGCACTGGCTTCTCATGCTTTAGTTATCAGACTTTCTA-AGGGGAAATAATTTTTCTATCGTTAAGTCCTTATGCTTATCCATTTTAGTTCACCTTTTTGTTAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9148838 139 -   9889416 AAAAAATGTT-CTGGAATGCACA----TAGGTATCAGAAAGCACTGGCTTCTCATGCTTTAGTTATCAGACTTTCTA-AGGGGAAATAATTTTTCTCTCGTTAAGTCCTTATGCTTATCCATTTTAGTTCACCTTTTTGTTAAAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24862004 121 -  38779656 ------------------GCATG----TGATCCCCAGAAAACATTATCTTTTGATGCTTTAGTTAATGAATTTTCCATAGGTTCAGTAATTCTTCTGTCTTTAAGTTCTGGTGCGCTTCCATTTTCTTTCACCTATT--TTAAAA
i otoGar3.GL873528          C 0 I 5
s canFam3.chr31              18031834 140 +  39895921 AAAATATTCT-TTGGAATGTATA----TGTTTACTAGAAAGTACTGTCTTCTCATACATAAGTTATTCATGTTTCCATAGGTGCAGTAATTATTCCATCTCTAAGTCATCACACATATCCATTTTTCTTCATCTATTTCTCAAAA
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2357645 138 +   3081153 AAATAACGTTCCTAGAACTCACA----TGGTTACCAGAAAGTGCTGTCTTATCATGCTTGAATTATCGAAGTTTCTATAGACTCAGGAAATCTAT---CTTTTAGTCCTCATATATTTCCATTTTATTTTACCTATTCCTTAAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23680609 8438 +  47401472 I

a score=2929392.000000
s hg38.chr21_GL383579v2_alt    100047 200 +    201197 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCTTTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGACAGATATATACATCTGCAAATGTATAT-----AGAGAAAGAG-------
s panTro5.chr21               8718401 200 +  33445071 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCTTTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGACAGATATATGCATCTGCAAATGTATAT-----AGAGAAAGAG-------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257608 200 +  46275980 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCTTTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGACAGATATATACATCTGCAAATGTATAT-----AGAGAAAGAG-------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8240175 200 -  13858734 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCTTTCTCTGAGTTACATTGCAATAATATGCACACAGTAAAGCAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATATAAATGTTCTCCTTGATTGAGTTTTAATGAAGACAGATATATACATCTGCAAATGTATAT-----AGAGAAAGAG-------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265652 196 +  32716333 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAACACCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAATACATGAAAACTGCTTTTCAGCTAGAAATAGAAATGCTCTCCTTGATTGACTTTTAATGA----AGATATATACATCTGCAAATGTATGT-----AGAGAAAGAG-------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160678049 200 - 185818997 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTGCTTGATTGAGTTTTAATGAAGATGGATACATACATCTGCAAATGTATAT-----AGAGAAAGAG-------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312689 200 - 192294377 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGATGGATACATACATCTGCAAATGTATAT-----AGAGAAAGAG-------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936596 200 -  30496662 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTGCTTGATTGAGTTTTAATGAAGATGGATACATACATCTGCAAATGTATAT-----AGAGAAAGAG-------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13461164 200 +  21915920 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGATAGATACATACATCTGCAAATGTATAG-----AGAGAAAGAG-------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962610 200 -  90373283 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACTAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGATGGATACATACATCTGCAAATGTATAG-----AGAGAAAGAG-------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466675 200 +   7543664 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGGTCTCCTTGATTGAGTTTTAATGAAGATGGATACATACATCTGCAAATGTATAG-----AGAGAAAGAG-------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237331 200 -  13750039 TCTCTTGGATTAAACAAAACA--GAAAGAAATGTCTTATCTAATGCCATTCTCTGAGTTACATTGCAATAATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTACTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGATGGATACATACATCTGCAAATGTATAG-----ACAGAAAGAG-------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26490823 199 +  50472720 TTTCTTGGGTT-AACAAAACA--GAAAGTAATGTCTTATCTAATGCTATTCTCTGAGTTACATTACAGTGATATGCACACAACAAATTAGTTTACTTACCAAGACATAAAAACTGCTTTTCAGCTAGAAATACAAGTGTTCTCCTTGACTGAGTTTTAATGAAGATAGATATATACATCTGCAAATGTATAC-----AGAGAAAGAG-------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8687368 200 +  13128814 TTTCTTGGGTTAAACAAAACA--GAAAGTAATGGGTTATCTAATTCCATTCTCTGAGTTACATTACAATAATATGCAAACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTATAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGATAGATACACACATCTGCAAATGTATAC-----AGAGAAAGAG-------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917381 200 -  14377064 TTTCTTGGGTTAAACAAAACA--GAAAGTAATGTGTTATCTAATGCCATTCTCTGAGTTACATTACCATCATATGCACACAATAAAGTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCCCCTTGATTGAGTTTTAATGAAGATAGATATACACATCTGCAAATGTATAC-----AGAGAAAGAG-------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9148977 200 -   9889416 TTTCTTGGGTTAAACAAAACA--GAAATTAATGTTTTATCTAATGCCATTCTCTGAGTTACATTACAGTAATATGCACACAATAAATTAGTTTACTTACCAAGACATGAAAACTGCTTTTCAGCTAGAAATACAAATGTTCTCCTTGATTGAGTTTTAATGAAGATAGATACATACATCTGCAAATGTATAC-----AGAGAAAGAG-------
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23689047 206 +  47401472 TCTCATGGGTTAAACAAAACATAGAAAGAAATGTCTTATCTAATGCCATTT-CTGAGTTGCACTACAATAATATGCACACACTAAAGCAGTTTGCTTACCAAGCCATGCAAACTGCATCTCAGCTAGAAATACAAATGTTCTCCTTGACTGAGTTTTAATGAAGATAGATATATACATCTTCTAATGCATAGAAAAAAGAAAAAGAG-------
i micMur3.chr31             I 8438 I 39
s otoGar3.GL873528           24862130 202 -  38779656 TCTCTTGGGTTAAACAAAACATGGAAAGAAATGTCGAAGGTAATGCCATTC-CTGAGTTGCATTACAATAATGTGCACACAATAAGGCAGTTTGCTTACCAAGCCGTGCGAACTGCATCTCAGCTAGAAATACAAATGTTCTCCTTGACTGAGTTTTAATGAAGATAGATATATACAT-TTGTAAAGCATAG---GAAGGGAAGGAG-------
i otoGar3.GL873528          I 5 I 17
s canFam3.chr31              18031974 196 +  39895921 TCTCTTGGGTTAAACAAAACATGGAAAGAAATGACTTCTCTACGGCCATTCCCTGAGTTACA-----ATAATATGCACAGAAGAAAGCAGTTTGCTTACCAAGCTATGAAAACTGCTTCTTAGCTAGAAATACCTATGTTCTCCTTGAATGAGTTTTAAAGAACATAGATGTACGCATCCA-AAATACATAG-----AAAGGAGAAG-------
i canFam3.chr31             C 0 I 11
s dasNov3.JH578070            2357783 209 +   3081153 TCTCTTGGGTTAAACAAAACATGGAAAGAAATGTCTTATCTAATGCTGTTCCCTAACTTATGTTACGATAATATATACACAATACAGCAGTTTGCTTACCAAGCCATGAAAACTGCTTCTCAGCTAGAAATACAAATGTTCTTCTTGATTGAGTTTTAATGAAGACAGATATGTGCATCTGCAAATGCATAG-----AGAAAAGGGACAATAGG
i dasNov3.JH578070          C 0 C 0

a score=468989.000000
s hg38.chr21_GL383579v2_alt    100247 38 +    201197 -------AGAACGCAGAGTGCTAGTACATGCATTTATGAGCCAGC
s panTro5.chr21               8718601 38 +  33445071 -------AGAACGCAGAGTGCTAGTAAATGCATTTATGAGCCAGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257808 38 +  46275980 -------AGAATGCAGAGTGCTAGTAAATGCATTTATGAGCCAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8240375 38 -  13858734 -------AGAACGCAGAGTGCTAGTAAATGCATTTATGAGCCAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265848 38 +  32716333 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160678249 38 - 185818997 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312889 38 - 192294377 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936796 38 -  30496662 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13461364 38 +  21915920 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962810 38 -  90373283 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466875 38 +   7543664 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237531 38 -  13750039 -------AGAACGCAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26491022 38 +  50472720 -------AGAACACAGAGTGCAAGGAAATGCATTTATGAGCTAGC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8687568 38 +  13128814 -------AGAATGCAGAGTGCAAGTAAATGCATTTATGAGCCAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917581 38 -  14377064 -------AGAACACAGAGTGCAAGTAAATGCATTTATGAGCCAGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9149177 38 -   9889416 -------AGAACACGGAGTGCAAATAAATGCATTTATGAGCCAGC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24862349 31 -  38779656 -------AGAACTCGGAGTGTAGCTGAAAGCATTTAGG-------
i otoGar3.GL873528          I 17 C 0
s canFam3.chr31              18032181 38 +  39895921 -------AGGAGGTAAAATACAAGTGGATGCACTGATGAGCAACC
i canFam3.chr31             I 11 C 0
s dasNov3.JH578070            2357992 45 +   3081153 AGAAAGCAGAAAATAGACTGCAAGTGAATGCATTTTTGAGTAAGT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23689253 39 +  47401472 I

a score=11190497.000000
s hg38.chr21_GL383579v2_alt    100285 895 +    201197  
s panTro5.chr21               8718639 897 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22257846 896 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8240413 889 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9265886 892 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160678287 901 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167312927 901 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4936834 899 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13461402 900 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19962848 901 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3466913 898 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5237569 900 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26491060 901 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8687606 907 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13917619 887 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9149215 876 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23689292 893 +  47401472  
i micMur3.chr31             I 39 I 241
s otoGar3.GL873528           24862380 909 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18032219 904 +  39895921  
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2358037 857 +   3081153  
i dasNov3.JH578070          C 0 C 0

a score=923286.000000
s hg38.chr21_GL383579v2_alt    101180  99 +    201197 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTTCTTTTGGTCttgaatcttaaataatat------ttttatagtaatttt----aacttaatttaat----ttaaGCACAGCT
s panTro5.chr21               8719536  99 +  33445071 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTTCTTTTGGTCttgaatcttaaataatat------ttttatagtaatttt----aacttaatttaat----ttaaGCACAGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22258742  99 +  46275980 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTTCTTTTGGTCTTGAATCTTAAATAATAT------TTTTATAGTAATTTT----AACTTAATTTAAT----GTAAGCACAGCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241302  99 -  13858734 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTTCTTTTGGTCTTGAATCTTAAATAATAT------TTTTATAGTAATTTT----AACTTAATTTAAT----TTAAGCACAGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9266778  99 +  32716333 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTTCTTTTGGTCTCGAATCTTAAATAAtat------tttaataatgatttt----aacttaatttaat----ttaaGCACAGCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679188 103 - 185818997 AAAGTTCATAAGGATTCTATATGA------TAA--------TCTTGCTTTTGGTCTGGAATCTTAAATAATAT------TTTTATAAtaatttt----accttaatttaatttatttaaGCACAGCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167313828 103 - 192294377 AAAGTTCATAAGGATTCTATATGA------TAA--------TCTTGCTTTTGGTCTGGAATCTTAAATAATAT------TTTTATAAtaatttt----accttaatttaatttatttaaGCACAGCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4937733 101 -  30496662 --AGTTCATAAGGATTCTATATGA------TAA--------TCTTGCTTTTGGTCTGGAATCTTAAATAATAT------TTTTATAAtaatttt----accttaatttaatttatttaaGCACAGCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13462302 103 +  21915920 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTGCTTTTGGTCTGGAATCTTAAATAATAT------TTTTATAATAATTTT----ACCTTAATTTAATTTACTTAAGCACAGCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19963749  99 -  90373283 AAAGTTCATGAGGATTCTATATGA------CAA--------TCTTGCTTTTGGTCTGGAATCTTAAATAATAT------TTTTATAATAATTTT----ACCTTAATTTAAT----TTAAGCACAGCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3467811 103 +   7543664 AAAGTTCATGAGGATTCTATATGA------TAA--------TCTTGCTTTTGGTCTGGAATCTTAAATAATAT------TTTTATAATAATTTT----ACCTTAATTTAATTTACTTAAGCACAGCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5238469 103 -  13750039 AAAGTTCATGAGGATTCCATATGA------TAA--------TCTTGCTTTTGGTCTTGAATCTTAAATAATAT------TTTTATAAtaatttt----accttaatttaatttatttaaGCACAGCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26491961  98 +  50472720 AAAGTTCATGAGGATTCTTTACAA------TAA--------TCTTTCTTTTGGTCTAAAATCttaaataatat------gtttataataattaa----aacttaatttCTT-----TAAGCACAGCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8688513  98 +  13128814 AAAGTTCCTAAGGATTCTGTATGA------TAA--------TCTTTCTTTTGGTCTAAAATCTTAAGtaatat------ttttataataattaa----aacttaatttCTT-----TAAGCACAGCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13918506  98 -  14377064 AAAGTTCATTAGGATGCTGTACTA------TAA--------TCTTTCTTTTGGTCTAAAATCTTAAATAATAT------TTTCATAATAATTAA----AACTTAATTTCTT-----TAAGCACAGCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150091  96 -   9889416 AAAGTTGATGAGGATTCTGTATGA------TAA--------TCTTTCTTTTGGTCTAAAATCTTAAATAATAT------TTTTATAATAATTAA----AAC--AATTTCTT-----TAAGCACAGCT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24863289 119 -  38779656 CAATTTCATGAGGATTCTGTAGTAGAAAATTGA--------TCTTTCTTTTAGTCTCAAATCTTGAATAGtattttatattttgtcataattttattaaatgtaatttatttaaaCCAAGTAAAATT
i otoGar3.GL873528          C 0 I 118
s canFam3.chr31              18033123 103 +  39895921 CTATTTCATGAAAATTCTATAGTA------GAAAATTGATCTCTTTCTTTTAGTCTCAAATCTTAACT----T------TTTTATTATAATTTT----AAGCTACATGTAT----TCACGTTCACCT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2358894  20 +   3081153 ---------------------------------------------------------------------atgt------atttata-tatatac----ac---------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23690185 241 +  47401472 I

a score=288460.000000
s hg38.chr21_GL383579v2_alt    101279 39 +    201197 AGAATT-TATGTATGCA----------TACA--TGTTTATAAGTTAAA-----------------------------------TATA
s panTro5.chr21               8719635 37 +  33445071 AGAATT-TATGTATGCA----------TACA--TGTTTATAAGTTAA-------------------------------------ATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22258841 39 +  46275980 AGAATT-TATGTATGCA----------TACA--TGTTTATAAGTTAAA-----------------------------------TTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241401 39 -  13858734 AGAATT-TATGTATGCA----------TACA--TGTTTATAAGTTAAA-----------------------------------TATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9266877 37 +  32716333 AGAatt-tatgtatgca----------tata--tgtttataagttaa-------------------------------------ata
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679291 39 - 185818997 AGAATT-TATGTATGCA----------TACA--TGTTTATGATTTAAA-----------------------------------TATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167313931 39 - 192294377 AGAATT-TATGTATGCA----------TACA--TGTTTATGATTTAAA-----------------------------------TATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4937834 39 -  30496662 AGAATT-TATGTATGCA----------TACA--TGTTTATGATTTAAA-----------------------------------TATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13462405 39 +  21915920 AGAATT-TATGTATGCA----------TACA--TGTTTATGATTTAAA-----------------------------------TATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19963848 39 -  90373283 AGAATT-TATGTATGCA----------TACA--TGCTTATGATTTAAA-----------------------------------TATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3467914 39 +   7543664 AGAATT-TATGTATGCA----------TACA--TGTTTATGATTTAAA-----------------------------------TATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5238572 39 -  13750039 AGAATT-TATGTATGCA----------TACA--TGTTTATAATTTAAA-----------------------------------TATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492059 37 +  50472720 AGAATT-TATGTAGGTA----------TAAA--TGTTTATAAGTTAA-------------------------------------ATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8688611 37 +  13128814 AGAATT-TATGTAGGTA----------TACC--TGTCTATAAGTTAA-------------------------------------ATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13918604 37 -  14377064 AGAatt-tatataggta----------taca--tgtttataagttaa-------------------------------------ata
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150187 37 -   9889416 AGACTT-TATGTAGGTA----------TACA--TGTTTATAAGTTAA-------------------------------------ATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24863526 47 -  38779656 aaaattGTATGGAGGTA----------TATA--TATATACAACTTATGCTA----------------------------AATTCATG
i otoGar3.GL873528          I 118 C 0
s canFam3.chr31              18033226 83 +  39895921 -AAAAC-tatatatacatattttatagtaca--tttatttagtttaatatatatttaatatataatacatataatacatattttgta
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2358914 30 +   3081153 --------atacataca----------tacatttatatataAATTATA---------------------------------------
i dasNov3.JH578070          C 0 I 141
e micMur3.chr31              23690185 241 +  47401472 I

a score=432578.000000
s hg38.chr21_GL383579v2_alt    101318  49 +    201197 TATGTATTTATCTCACACTTTAATGTA------------------------CTGTCTAGACTC------------------------------ACTGTAATAT
s panTro5.chr21               8719672  49 +  33445071 TATGTATTTATCTCACACTTTAATGTA------------------------CTGTCTAGACTC------------------------------ACTGTAATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22258880  49 +  46275980 TATGTATTTATCTCACACTTTAATGTA------------------------CTGTCTAGACTC------------------------------ACTGTAATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241440  44 -  13858734 TATGTATTTATCTCACACTT-----TA------------------------CTGTCTAGACTC------------------------------ACTATAATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9266914  49 +  32716333 tatatatttatCTCACACTTTAATGTA------------------------GTGTCTAGACTC------------------------------ACTGTAATAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679330  53 - 185818997 TCTATATTTATCTCACACTTTAATATA--------------------GCATCTATCTAGAATC------------------------------ACCATAATAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167313970  53 - 192294377 TCTATATTTATCTCACACTTTAATATA--------------------GCATCTATCTAGAATC------------------------------ACCATAATAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4937873  53 -  30496662 TCTATATTTATCTCACACTTTAATATA--------------------GCATCTATCTAGAATC------------------------------ACCATAATAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13462444  53 +  21915920 TCTATATTTATCTCACACTTTAATATA--------------------GCATCTATCTAGAATC------------------------------ACCATAATAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19963887  53 -  90373283 TCTATATTTATCTCACACTTTAATATA--------------------GCATCTATCTAGAATC------------------------------ACCGTAATAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3467953  53 +   7543664 TCTATATTTATCTCACACTTTAATATA--------------------GCATCTATCTAGAATC------------------------------ACCATAATAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5238611  53 -  13750039 TCTCTATTTATCTCACACTTTAATATA--------------------GCATCTATCTACAATC------------------------------ACCGTAATAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492096  50 +  50472720 TATATATTTATCTCACACTTTAATGTG-----------------------TCTATCTAGACTC------------------------------ACTATAATAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8688648  50 +  13128814 TATATATTTATCTCACACTTTAATGTG-----------------------TCTATCTAGACTC------------------------------ACTATAATAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13918641  50 -  14377064 tatatatgtatctcacactttaatgtg-----------------------tctatctagattc------------------------------actataatat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150224  50 -   9889416 TATATATTTATTTCACACTTTAATGTG-----------------------TCTATCTAGACTC------------------------------ACTATAATAT
i aotNan1.NW_018487195v1    C 0 I 11
s otoGar3.GL873528           24863573  48 -  38779656 TATATATTTATCCCAAACTTTATTGTT-------------------------TAGTCATATGC------------------------------ACTATTACAT
i otoGar3.GL873528          C 0 I 2
s canFam3.chr31              18033309 103 +  39895921 aatatatgtatatattattttaatggatattatataAAGGTTTGGTAGTTTCTGTTAGGAATTCTGTATGCTTATCAGTATTATAGATTTCAAACTGTAATAT
i canFam3.chr31             C 0 I 33
e micMur3.chr31              23690185 241 +  47401472 I
e dasNov3.JH578070            2358944 141 +   3081153 I

a score=-6765.000000
s hg38.chr21_GL383579v2_alt    101367 5 +    201197 TGTCA
s panTro5.chr21               8719721 5 +  33445071 TGTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22258929 5 +  46275980 TGTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241484 5 -  13858734 TGTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9266963 5 +  32716333 AGTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679383 5 - 185818997 AGTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167314023 5 - 192294377 AGTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4937926 5 -  30496662 AGTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13462497 5 +  21915920 AATAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19963940 5 -  90373283 AGTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3468006 5 +   7543664 AGTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5238664 5 -  13750039 AGTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492146 3 +  50472720 -ACA-
i calJac3.chr21             C 0 I 10
s saiBol1.JH378168            8688698 3 +  13128814 -ACA-
i saiBol1.JH378168          C 0 I 3
s cebCap1.NW_016107322v1     13918691 3 -  14377064 -aca-
i cebCap1.NW_016107322v1    C 0 I 8
s otoGar3.GL873528           24863623 5 -  38779656 AGCAT
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              18033445 5 +  39895921 AGTAG
i canFam3.chr31             I 33 C 0
e micMur3.chr31              23690185 241 +  47401472 I
e dasNov3.JH578070            2358944 141 +   3081153 I
e aotNan1.NW_018487195v1      9150274 11 -   9889416 I

a score=229349.000000
s hg38.chr21_GL383579v2_alt    101372 21 +    201197 ATTGTCAATACAATATTCTTT
s panTro5.chr21               8719726 21 +  33445071 ATTGTCAATATAATATTCTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22258934 21 +  46275980 ATTGTCAATACAATATTCTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241489 21 -  13858734 ATTGTCAATCCAATATTCTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9266968 21 +  32716333 ATTGTCAATACAATATTCTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679388 21 - 185818997 ATTGTCAATACAAAATTCTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167314028 21 - 192294377 ATTGTCAATACAAAATTCTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4937931 21 -  30496662 ATTGTCAATACAAAATTCTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13462502 21 +  21915920 ATTGTCAATACAAAATTCTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19963945 21 -  90373283 ATTGTGAATACAAAATTCTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3468011 21 +   7543664 ATTGTCAATACAAAATTCTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5238669 21 -  13750039 ATTGTCAATACAAAATTCTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492159 21 +  50472720 ATTGTCAATATAATATTCTTC
i calJac3.chr21             I 10 C 0
s saiBol1.JH378168            8688704 21 +  13128814 ATTGTCAATATAATATTCTTC
i saiBol1.JH378168          I 3 C 0
s cebCap1.NW_016107322v1     13918702 21 -  14377064 attgtcaatataatatTCTTC
i cebCap1.NW_016107322v1    I 8 C 0
s aotNan1.NW_018487195v1      9150285 21 -   9889416 ATTGTCAATATAATATTCTTC
i aotNan1.NW_018487195v1    I 11 C 0
s otoGar3.GL873528           24863628 21 -  38779656 ATGGTTAATAGAATGCTATTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18033450 21 +  39895921 ATGGCCAATAAAATGTTATTT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23690185 241 +  47401472 I
e dasNov3.JH578070            2358944 141 +   3081153 I

a score=1328373.000000
s hg38.chr21_GL383579v2_alt    101393 116 +    201197 ATATTAAAATAAGATTT--------------TTGATATATTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTGTTAAGAGTTCAAAGGGCTTTTTAGCT--GTGACAGTCCTTCCTGGAT
s panTro5.chr21               8719747 116 +  33445071 ATATTAAAATAAGACTT--------------TTGATATATTTGGG-----------GATTACATTCTGTATGATAGAACCCTAACTGGTTTTATTGTTAGGAGTTCAAAGGGTTTTTTAGCT--GTGACAGTCCTTCCTGGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22258955 116 +  46275980 ATATTAAAATAAGATTT--------------TTGATATATTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTGTTAAGAGTTCAAAGGGCTTTTTAGCT--GTGACAGTCCTTCCTGGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241510 114 -  13858734 ATATTAAAATAAGATTT--------------TTGATATCTTTGGG-----------GGTTACATTCTG-ATTATAGAACCCTAACTGGCTTTA-TGTTAAGAGTTCAAAGAGCTTTTTAGCT--GTGACAGTCCTTCCTGTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9266989 116 +  32716333 ATATTAAAATAAGATTT--------------TTGATATCTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTGTATTGTTAAGAGTTCAAAGAGCTTTTTAGCT--GTGACAGTCCTTCCTGGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679409 116 - 185818997 ATATTAATGTAAGATTT--------------TTGATGTGTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCCTTTTAGCT--GTGATAGTCCTTCCTGGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167314049 116 - 192294377 ATATTAATGTAAGATTT--------------TTGATGTCTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTATTAAGAGTTCACAGAGCCTTTTAGCT--GTGATAGTCCTTCCTGGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4937952 116 -  30496662 ATATTAATGTAAGATTT--------------TTGATGTGTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCCTTTTAGCT--GTGATAGTCCTTCCTGGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13462523 116 +  21915920 ATATTAATGTAAGATTT--------------TTGATGTCTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCCTTTTAGCT--GTGATAGTCCTTCCTGGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19963966 116 -  90373283 ATATTAATGTAAGATTT--------------TTGATGTCTTTGGG-----------GGTTACATTCTGTATGATAGAATCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCTTTTTAGCG--GTGACAGTCCTTCCTGGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3468032 116 +   7543664 ATATTAATGTAAGATTT--------------TTGATGTCTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCCTTTTAGCT--GTGATAGTCCTTCCTGGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5238690 116 -  13750039 ATATTAATGTAAGATTT--------------TTGATGTCTTTGGG-----------GGTTACATTCTGTATGATAGAACCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCTTTCTAGCT--GTGACAGTCCTTCCTGGAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492180 115 +  50472720 ATATTAAAATAAGATTT--------------TTCATAT-TTTGAG-----------GGTTACATTCTATATGATAGAATCCTAATGAGATTTATTATTAAGAGTTCAAAGAGCTTTTTAGCA--GTGACAGTCCTTCCTGAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8688725 114 +  13128814 ATATTAAGATAAGATTT--------------TTAATAA-TTTTGG-----------GGTTACGTTCTATATGATATAATCATAACTGGTTTTACTATCAAGAGTTCAAAGAGCTTTTTAGCA---TGACAGTTCTTCCTGGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13918723 115 -  14377064 ATATTAAAATGAGATTT--------------TTAATAT-TTTTGG-----------GATTACATTCTATATGATAGATTCCTAACTGGTTTTATTATTAAGAGCTCAAAGAGCTTTTTAGCA--GTGACAGTCCTTCCTGGAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150306 115 -   9889416 ATATTAAAATAAGATTT--------------TTAATAT-TTTTGG-----------GGTTATGTTCTATATGATAGAATCCTAACTGGTTTTATTATTAAGAGTTCAAAGAGCTTTATAGCA--GTGACAGTCCTTCCTGGAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23690426 118 +  47401472 ATATTGAAATAAGAGTT--------------TTGATGTTGTTAGG-----------GGTTACATTCTATAGGCTAGATCCCTAGCTAATTTTATTGTTCAGAATCCAAAAAGCTTTTTAGGTAAGTGACAGTTCTTCCTGAAT
i micMur3.chr31             I 241 C 0
s otoGar3.GL873528           24863649 141 -  38779656 ATATTGAAATAGTAGCTCCATCTATTGTAGGTTGAATTCTGTAGGGTAGATTTGTAGGCTGGACTCTATAGGGTAGATTCCTAACTAGTTTTACTACTCTGAGTTC--AGAGCTATTTGGCTGAGTGACAGTGCTTCCTGCAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18033471 118 +  39895921 ATATTGAAATAAGCCTT--------------TTCAGGACGTTGAG-----------GGTTACGTCCTATACACTAAAATTCTAACTAGTTTTACTATTAGGAGTTCAGAAAGTCTTTTAGCTGAGTCACCTTCCTTCTTGCAT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2358944 141 +   3081153 I

a score=3943596.000000
s hg38.chr21_GL383579v2_alt    101509 342 +    201197 ATTTGTGTTGAAGTTTGATCTCACTTACATTTCGCCTTAGCCATGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGAGGTTAGTCAATGCTCTC-AAGACTTCCAACCCTGAGGACTT--AATGAACGTGGCAATCTAAACACAGGAACTTGTCTAATTGATTATTTCCCAGGATGACAGTGAATGCAATTTAAGAACAAACTTTTATGG---CAAGTTGTAACTGAGATTTACattcattcactcaaaagcattactttaacatctactgtctgctggggcattgt-tccagacAAGCAATTCTCAAAGTGTGA-ACCATGTTACAATACAAgggtctta-gag------att
s panTro5.chr21               8719863 342 +  33445071 ATTTGTGTTGAAGTTTGATCTCACTTACATTTCGCCTTAGCCATGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGAGGTTAGTCAATGCTCTC-AAGACTTCCAACCCTGAGGACTT--AATAAACGTGGCAATCTAAACACAGGAACTTGTCTAATTGATTATTTCCCAGGATGACAGTGAATGCAATTTAAGGACAAACTTTTATGG---CAAGTTGTAACTGAGATTTACattcattcactcaaaagcattactttaacatctactgtctgctgggccattgt-tccagacAAGCAATTCTCAAAGTGTGA-ACCATGTTACAATACAAgggtccta-gag------att
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259071 342 +  46275980 ATTTGTGTTGAAGTTTGATCTCACTTACATCTCGCCTTAGCCATGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGAGGTTAGTCGATGCTCTC-AAGACTTCCAACCCTGAGGACTT--AATGAACGTGGCAATGTAAACACAGGAACTTGTCTAATTGATTATTTCCCAGGATGACAGTGAATACAATTTAAGGACAAACTTTTATGG---CAAGTTGTAACTGAGATTTACattcattcactcaaaagcattactttaacatctactgtctgctggggcattgt-tccagacAAGCAATTCTCAAAGTGTGA-ACCATGTTACAATACAAGGGTCCTA-GAG------ATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241624 342 -  13858734 ATTTGTGTTGAAGTTTGATCTCACTTACATTTAGCCGTAGCCATGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGAGGTTAGTCAATGCCCTC-AAGACTTCCAACCCTGAGGACTT--AATGAACGTGGCAATCTAAACACAGGAACTTGTCTAATTGATTATTTCCCAGGATGACAGTGAATGCAATTTAAGGACAAACTTTTATGG---CAAGTTGTAACTGAGATTTACattcattcactcaaaagcattactttaacatctactgtctgctggggcattgt-tccagacAAGCAATTCTCGAAGTGTGA-ACCATGTTACAATACAAgggtccta-gag------att
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267105 342 +  32716333 ATTTGTGTTGAAGTTTGATCTCACTTATGTTTCGCCGTAGCCACGTTCTCTTGCCCTGAGATCCAGATTATTACAGCAGAGGTTAGTCAATGCTCTC-AAGACTTCTAACCCTGAGGACTT--AATGAACGTGGCAGTCTAAACACAGGAACTTGTCTAATTGATTATTCCCCAAGATGACAGTGAATGCAGTTTAAGGACAAACTTTTATGG---CAAGTTGCCACTGAGATTTACattcattcattcaaaagcattactttaacatctactgtctgctggggcattgt-tccagacAAGCAATTCTCAAAGTGTGA-ACCATGTTACAATACAAGCgtccta-gag------att
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160679525 342 - 185818997 ATTTGTGTTGAAGTTTGATCTCACTTACGTTTCGCTGTAGCCACGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGACGTTAGTCAATGCTCTCAAAGACTCCTAAGCCTGAGGACTT--AATGAACGTGGCAGTCTAAATACAGGAACTTGTCTAATTGATTATTTCCCAAGATGACAGGGAATGCAATTTAAGGACAAATTTTTACAG---CAAGTTGCAAC-GAGATTTACattcattaattcaaaagcattcctttaacagctactctctgctggggcattgt-tccagacAagcaattctcaaagtgtga-accatgttacaatacaggggtccta-gag------att
i rheMac8.chr3              C 0 I 311
s macFas5.chr3              167314165 342 - 192294377 ATTTGTGTTGAAGTTTGATCTCACTTACGTTTCGCTGTAGCCACGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGACGTTAGTCAATGCTCTCAAAGACTTCTAAGCCTGAGGACTT--AATGAACGTGGCAGTCTAAATACAGGAACTTGTCTAATTGATTATTTCCCAAGATGACAGGGAATGCAATTTAAGGACAAATTTTTACAG---CAAGTTGCAAC-GAGATTTACattcattaattcaaaagcattcctttaacagctactctctgctggggcattgt-tccagacaagcaattctcaaagtgtga-accatgttacaatacaggggtccta-gag------att
i macFas5.chr3              C 0 I 308
s macNem1.NW_012015021v1      4938068 342 -  30496662 ATTTGTGTTGAAGTTTGATCTCACTTACGTTTTGCTGTAGCCACGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGACGTTAGTCAATGCTCTCAAAGACTTCTAAGCCTGAGGACTT--AATGAACGTGGCAGTCTAAATACAGGAACTTGTCTAATTGATTATTTCCCAAGATGACAGGGAATGCAATTTAAGGACAAATTTTTACAG---CAAGTTGCAAC-GAGATTTACattcattaattcaaaagcattcctttaacagctactctctgctggggcattgt-tccagacAAGCAATTCTCAAAGTGTGA-ACCATGTTACAATACAGGGGTCCTA-GAG------ATT
i macNem1.NW_012015021v1    C 0 I 205
s cerAty1.NW_012002954v1     13462639 342 +  21915920 ATTTGTGTTGAAGTTTGATCTCACTTACGTTTCGCCGTAGCCACGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGGCGTTAGTCAATGCTCTCAAAGACTTCTAAGCCTGAGGACTT--AATGAACGTGGCAGTCTAAACACAGGAACTTGTCTAATTGATTATTTCCCAAGATGACAGGGAATGCAATTTAAGGACAAATTTTTACAG---CAAGTTGCAAC-GAGATTTACattcattaattcaaaagcattcctttaacagctactctctgctggggcattgt-tccagacAagcaattctcaaagtgtga-accatgttacaatacagcggtccta-gag------att
i cerAty1.NW_012002954v1    C 0 I 309
s chlSab2.chr2               19964082 342 -  90373283 ATTTATGTTGAAGTTTGATCTCACTTACGTTTCACTATAGCCACGTTCTCTTGCCCTAAGATCCAGATTATTACAGCAGACGTTAGTCAATGCTCTCAAAGACTTCTAAGCCTGAGGACTT--AATGAACGTGGCAGTCTAAACACAGGAATTTGTCTAATTGATTATTTCCCAAGATGACAGGGAATGCAATTTAAGGACAAACTTTTACAG---CAAGTTGCAAT-GAAATTTACATTCATTAATTCAAAAGCATTACTTTAACATCTAGTATCTGATGGGGCATTGT-TCCAGACAAGCAATTCTCAAAGTATGA-ACCATGTTACAATACAGGGGTCCTA-GAG------ATT
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3468148 342 +   7543664 ATTTGTGTTGAAGTTTGATCTCACTTACGTTTCGCCGTAGCCACATTCTCTTGCCCTAAGATCCAGATTATTACAGCAGGCGTTAGTCAAGGCTCTCAAAGACTTCTAAGCCTGAGGACTT--AATGAACGTGGCAGTCTAAACACAGGAACTTGTCTAATTGATTATTTCCCAAGATGACAGGGAATGCAATTTAAGGACAAATTTTTACAG---CAAGTTGCAAC-GAGATTTACattcattaattcaaaagcattcctttaacagctactctctgctggggcattgt-tccagacAagcaattctcaaagtgtga-accatgttacaatacaggggtccta-gag------att
i manLeu1.NW_012103476v1    C 0 I 311
s colAng1.NW_012120598v1      5238806 342 -  13750039 ATTTGTGTTGAAGTTTGATCTAACTTACGTTTCGCCGTAGCCACGTTCTCTTGCCCTAAGATCCAGATTATAACAGCAGACGTTAGTCAACGCTCTCAAAGACTTCTAAGCCTGAGGACTT--AATGAATGTGGCAGTCTAAACACAGGAACTTGTCTAATTGATTATTTCCCAAGATGACAGTGAATGCAATTTAAGGACAAACTTTTACAG---CAAGTTCCAAT-GAGATTTACattcattaattcaaaagcattactttaacatctactttctgctggggcattgt-tccagacAagcaattctcaaagtgtga-accatgttacaatacaagggtccta-gag------att
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26492295 337 +  50472720 ATTTGTGTTGAAATTTGATCTCACTTATGTTTCTCCTTAGCCACATTCTCTTGCCTTAAGATCCAGATTATTACAGCAGAGGCTAGTCAATGTGCTC-AGGACTT------CTGAGGACTT--AATGAACGTGGCAATCTGAACACAGGAACTTGTCTAATTGATTATTTCTCAAGACGACAGTAAATGAAATTTGAGGCCAAACTTTTAAGG---CAAGTTGCAACCAAGATTTATAATCATTCATTCAGAAGCATTATTTTAACATGCACTCTCTGCTGGGGCATTTTCTCTAGACAAATAATTCCCCAAGTTTGA-AACATGTTACAATATAGGGGTCCCA-AAG------ATT
i calJac3.chr21             C 0 I 4
s saiBol1.JH378168            8688839 335 +  13128814 ATTTGTGTTGAAATTTGGTCTCACTTATGTTTCTCCTGAGCCACATTCTCTTGCCTTAAGATCCAGATTATTACAGCAGAGTTTAGTCGATGCTCTC-AAGACTT------CTGAGGACTT--AATGAATG-GGCAATCTGAACCCAGCAACTTGTCTAATTGATTATTTCTCAAGATAACAGTAAATGCAATTTGATGCCAAACTTTTATGG---CAAGTTG-AACCGAGGTTTATATTCATTCATTCAGAAGCATTACTTTAACATCCACCCTCTGCTGGGGCATTTTCTCCAGACAagtaattttcaaagtgtga-accatgttgcaacataggggtccca-aag------att
i saiBol1.JH378168          C 0 I 5
s cebCap1.NW_016107322v1     13918838 337 -  14377064 ATTTGTGTTGAAATTTGATCTCACTTATGTTTCTCCTTAGCCACATTCTCTTGCCTTAAGATCCAGATTATTACAGCAGAGGTTAGTCAATGCTCTC-AAGACTT------GTGAGGACTT--AATGAATGTGGCAATCTGAACACAGAAACTTGTCTAATTGATTATTTCTCAAGATGACAGTAAATGCAATTTGAGGCCAAACTTTTAAGG---CAAGTTGCAACCGAGGTTTATATTCATTCATTCAGAAGCATTACTTTAACATCCACTCTCTGCTGGGGCATTTTCTCCAGACAAGTAATTCTTAAAGTGTGA-ACCATGTTACAATATAGGGGTTCCA-AAG------ATT
i cebCap1.NW_016107322v1    C 0 I 4
s aotNan1.NW_018487195v1      9150421 337 -   9889416 ATTTGTGTTGAAATTTGATCTCACTTATGTTTCTCCTTAACCACATTCTCTTGCCTTAAGATCCAGATTATTACAGCAGAGGTTAGTCAATGCTCTC-AAGACTT------CTGAAGACTT--AATGAATGTGGCAATCTGAAGACAGGAACTTGTCTAATTGATTATTTCTCAAGAAGACAGTAAATGCAATTTGAGGCCAAACTTTTAAGG---CAAGTTGCAACCGAGGTTTATATTCATTCATTCGGAAGCATTACTTTAACATCCACTCTCTGCTGGGGCATTTTCTCCAGACAagtaattctcaaagtgtga-accatgttacaatataggggtccca-aag------att
i aotNan1.NW_018487195v1    C 0 I 4
s micMur3.chr31              23690544 348 +  47401472 TTTTGTGTTGAAGTTTTAT-TCCCTTAATGTTTTCCTCAGCCACATTCTCTTGCCCTAAGATGCAGATCATTATAGCAGAAGTTAGTCAATTCTCTC-AAGAATTCTCAGTCTGAAGACTTTTGATGAATGTGGCAGTCTTAACACATGAACTTGTTTAACTGATTATTTCCCAAGATGACATTTAACGTAATTTCAGGACAAACCTTTACAA---CAAGTTGCACCTGAGGTGCATATTCATTCATTCAAAAGTGTTACTTTAAAATCTAGTCTCCACCAGAGCATTGT-TCCAGACCAACAATTCTCAAACTATGA-AACCTGCTACAATACAGGGGTCCAG-GAATTTTTTTT-
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24863790 339 -  38779656 ATTTGCACTGAAATTTTAT-TCACCTATTGTTTTCCTCAGCCACATTCTCTCACCCTGAGATACAGATCATTACAGTGGAGCTTCGTCAATTCTCT--AAGACTTCTCTGTCCAAAGACTTTCGATGAAGGTGGCAGTCTGAACACAGGGACTTGTTTCAGTGATTATCCCCACAAATGACATTTAATGCCATTTCAGGACAAA-CTTTACGT---CAGGTTGCAGCTGAGGCACACATTCTTTTGTTCCAAAGCATTAC-TTAACATCTATTCTCTTTCAGTGCTTTGT-TCCAGACCGACAATCCTCAGAATGTGA-CCCCTGCTATAGTACAggggtccag-gaa------gt-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18033589 337 +  39895921 ATTTGTGTTGAAGTCTCCTATGAGTGTTCTTTC-TTTCAGTTGTCTTCTCTTATTTTGAGATTCAGGTCATTATAACAGAAGGTAGTCAATTCTCTC-AAGAGTTCTCAGCCTGCAGAGTTTTGATGAATGTATCAGTCTGAACACAAGGATTTGCCTAATTTATTATTTCCCAAGTTGACA--CAATGCATTTTTAGGACAAAC--TTATAG---CAAGCTGCAAATCGGATACACattcattctttcaaaagcaatatttaaacatccactctctcccagagtattgt-tccaggcTGGCAATTCTC--ACTGTAA-GCCCAGCTACAAttcaggagtcctg-ggg------gtg
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2359085 259 +   3081153 atcaatgctgaagcagaat-----ttaaattcctc----------ttctgacttcttgaattcccgattct-------------------ggctttt-aagacctcca---------actg--attggagg-agtagactccccaca-----ttgccgag--ggcaatctcctttgttgatcatagctgcaat-------caagtgattatagacacaaattccatctcaaa-ataccctcat--gttagcaagca----------ggccagtgtttgatgaacca-----actggacaa-------------tgggacaccataatctaatatagctgacacatgaa------att
i dasNov3.JH578070          I 141 C 0

a score=3947.000000
s hg38.chr21_GL383579v2_alt    101851 3 +    201197 aaa--
s panTro5.chr21               8720205 3 +  33445071 aaa--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259413 3 +  46275980 TTA--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241966 3 -  13858734 aaa--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267447 3 +  32716333 aaa--
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167314815 2 - 192294377 -aa--
i macFas5.chr3              I 308 I 1
s chlSab2.chr2               19964425 2 -  90373283 -TA--
i chlSab2.chr2              I 1 I 1
s colAng1.NW_012120598v1      5239149 2 -  13750039 -ta--
i colAng1.NW_012120598v1    I 1 I 1
s calJac3.chr21              26492636 2 +  50472720 -AA--
i calJac3.chr21             I 4 C 0
s saiBol1.JH378168            8689179 3 +  13128814 aaa--
i saiBol1.JH378168          I 5 C 0
s cebCap1.NW_016107322v1     13919179 3 -  14377064 AAA--
i cebCap1.NW_016107322v1    I 4 C 0
s aotNan1.NW_018487195v1      9150762 3 -   9889416 aaa--
i aotNan1.NW_018487195v1    I 4 C 0
s micMur3.chr31              23690892 3 +  47401472 AAA--
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24864129 3 -  38779656 aaa--
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18033926 3 +  39895921 gaa--
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2359344 3 +   3081153 --agc
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13462981 309 +  21915920 I
e macNem1.NW_012015021v1      4938410 205 -  30496662 I
e rheMac8.chr3              160679867 311 - 185818997 I
e manLeu1.NW_012103476v1      3468490 311 +   7543664 I

a score=1461010.000000
s hg38.chr21_GL383579v2_alt    101854 129 +    201197 aaa---------aatcataataatatt---atgatatctgcttttttcactttccatatctcaagagaataaagtcttccagtgaagtcttccaggagctaa----aaga-----tatatcacaaaagattgtatataaaaacagttatg
s panTro5.chr21               8720208 129 +  33445071 aaa---------aatcataataatatt---atgatatctgcttttttcactttccatatctcaagagaataaagtcttccagtgaagtcttccaggagctaa----aata-----tatatcacaaaagattgtgtataaaaacagttatg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259416 129 +  46275980 AAA---------AAtcataataatatt---atgatatctgcttttttcactttccatatctcaagagaataaagtcttccagtgaagtcttccaggagctaa----aaga-----tatatcacaaaagattgtatataaaaacagttatg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8241969 128 -  13858734 aaa---------aatcataataatatt---atgatgtctgcttttttcactttccatatctcaagagaataaagtcttccagtgaaatcttccaggagctaa----aaga-----tacatcacaaaagattgtatataaaaac-gttatg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267450 129 +  32716333 aaa---------aatcataataatatt---atgatatctgcttttttcactttccatatctcaagagaataaagtcttccagtgaagtcttccaggagctaa----acga-----tatatcacaaaagattgtgtataaaaacagttatg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680178 134 - 185818997 aaa---------aatcataataatatt---atgatatctactttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctaa----atgatacattatatcacaaaagattgtatataaagacagatatg
i rheMac8.chr3              I 311 C 0
s macFas5.chr3              167314818 134 - 192294377 aaa---------aatcataataatatt---atgatatctactttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctaa----atgatacattatatcacaaaagattgtatataaagacagatatg
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4938615 134 -  30496662 aaa---------aatcataataatatt---atgatatctactttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctaa----atgatacattatatcacaaaagattgtatataaagacagatacg
i macNem1.NW_012015021v1    I 205 C 0
s cerAty1.NW_012002954v1     13463290 133 +  21915920 aaa---------aatcataataatatt---atgatatctactttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctaa----atgataca-tatatcacaaaagattgtatataaagacagatatg
i cerAty1.NW_012002954v1    I 309 C 0
s chlSab2.chr2               19964428 134 -  90373283 AAA---------AAtcataataataat---atgatatctgctttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctga----atgatatattatatcacaaaagattgtatataaagacagatatg
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3468801 134 +   7543664 aaa---------aatcataataacatt---atgatatctactttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctaa----atgatacattgtatcacaaaagattgtatataaagacagatatg
i manLeu1.NW_012103476v1    I 311 C 0
s colAng1.NW_012120598v1      5239152 134 -  13750039 aaa---------aatcataataatatt---atgatatctgctttttccactttccacatctcaagagtataaagtcttctagtgaagtcttccaggagctaa----atgatacattatatcacaaaagattgtatataaaaacagatatg
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26492638 132 +  50472720 ------------AAttatactaatattataatgataactactgttttcactttccatatctagagagtataaagtcttccagtgaagtcttccagaagctat----gtgatacattatatcacagaagattgtatataaaaac--atatg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689182 134 +  13128814 ------------aatcataataatattataatgatatctactgtttttactttccatatctggagagtataaagtcttccagtgaagtcttccagaagctat----gtgatatattatatcacagaagattgtatataaaaacagatatg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13919182 134 -  14377064 ------------AAttataataatattataatgatatctactgttttcacttactatatctagggagtataaagtcttccagtgaaatcttccagaagctat----gtgatttattatatcacagaagattgtatataaaaacagatatg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150765 134 -   9889416 ------------aattataataatattataatgatatctactgttttcactttccatatctagagagtataaagtcttccagtgaagtcttccagaagctat----gtgatatattatattacagaagattgtatataaaaacagatatg
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23690895 128 +  47401472 -AA---------tttaataatagtattattatggtatctgcctttttcactttcaatatctcaagagtata--------tggtaaagtcttccaggagctat----gtgatgtatgataacacaaatgattgaatatgaaaacagatatg
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24864132 136 -  38779656 -aaataa----ttttcatagtaggactatgacagtatctgcccttttcacttttgatgtctcaaaaataca--------tggtaaa-ttatccaggagttatatacatgttataatatatcacaaatgattgaatataagaccagatacg
i otoGar3.GL873528          C 0 I 6893
s canFam3.chr31              18033931 129 +  39895921 aat---------ttttataagaatactaagctagtatctgccttgtccacttttaatctctcaggagagta--------tgatgacgtcttccaggagctac----aggatatgtgatatcacaaaagactgactatagaaacataaatg
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2359347 116 +   3081153 ----caccCCTCAATTATAACAATCA----ACAACA-----------cactttcaatctctcaagagcata--------caatggagttttccagaggctag----atgatatgtgataaaaca-aagattaaaaatagaaacagatg--
i dasNov3.JH578070          C 0 C 0

a score=923560.000000
s hg38.chr21_GL383579v2_alt    101983 86 +    201197 agaatctagctgccttctagtaagtcagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
s panTro5.chr21               8720337 86 +  33445071 agaatctagctgccttctagtaagtcagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259545 86 +  46275980 agaatctagctgccttctagtaagtcagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242097 86 -  13858734 agaatctagctgccttctagtgagtcagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267579 81 +  32716333 agaatctagctgccttgtagtaagtcagacattaaagagatgcaca----aa------aatataaagccactatttctcaataaacatttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680312 86 - 185818997 agaatccagctgccttctagtaagccagacattaaagagttgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167314952 86 - 192294377 agaatccagctgccttctagtaagccagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4938749 86 -  30496662 agaatccagctgccttctagtaagccagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13463423 86 +  21915920 agaatccagctgccttctagtaagccagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19964562 86 -  90373283 agaatccagctgccttctagaaagccagacattaaagggatgcaca----aaa-atataatataaagccactatttctccataaacatttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3468935 86 +   7543664 agaatccagctgccttctagtaagccagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5239286 86 -  13750039 agaatccagctgccttctagtaagccagacattaaagagatgcaca----aaa-atataatataaagccactatttctcaataaacatttt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492770 78 +  50472720 agaatctagttgccttctaataagtcagaaattaaggagatgtacaatatatatatata------------tatttctcaataaaca-ttt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689316 75 +  13128814 aaaatctatctgccttctaataagtcagacattaaagagatgcaca----aaatatata------------tatttcccaataaacatttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13919316 75 -  14377064 agaatctagctgccttctaataagtcatacattaaagagatgcaca----aaatatata------------tatctctcaataaacatttt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150899 75 -   9889416 agaatctagctgccttctaataagtcagacattaaagagatgcaca----aaatatata------------tatttctcaataaacatttt
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23691023 86 +  47401472 aaaatccagctgtcttctagtatgtcagacattaaagatatgtaga----aaa-ctattgtataaagccactttttctcactgaacatttt
i micMur3.chr31             C 0 I 3948
s canFam3.chr31              18034060 82 +  39895921 -agatccagctttcttatatt--gtcaggcattaaaaagatgggca----gaa-atgtacaat-aagccactctttcttactaatcatgtc
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2359463 82 +   3081153 agaatacagctgtctttt-gtaagtaagacatgtaaaaactgcata----a---atataaaataaaactact-tttctcaataaaaaatgt
i dasNov3.JH578070          C 0 C 0
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=866050.000000
s hg38.chr21_GL383579v2_alt    102069 200 +    201197 tg-tttgggaaagtgtaatctttaatcttttaagtgtg-atcttttaagtaagttaat-------aagtgtataatttaatttaagtaagttaataatcttttaaa-----TAAGTAAGTGTAATCTTTTaagtaagttatttttgctatcatgtgtaattatag------ttaataactggaatagaa----taagtttaaatattgctaagtttgaattcct
s panTro5.chr21               8720423 203 +  33445071 tg-tttgggaaagtgtaatCTTTAATCTTTTAAGTGTA-ATCTTTTAAGTAAGTTAAT---------GTGTATAACTTAATT----TAAGTTAATAATCTTTTAAATAAGTTAAGTAAGTGTAATCTTTTaagtaagttatttttgctatcatgtgtaattatag------ttaataactggaatagaataactaagtttaaatattgctaagtttgaattcct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259631 209 +  46275980 tg-tttgggaaagtgtaatCTTTAATCTTTTAAGTGTA-ATCTTTTAAGTAAGTTAAT-------AAGTGTATAATTTAATTTAAGTAAGTTAATAATCTTTTAAATAAGTTAAGTAAGTGTAATCTTTTaagtaagttatttttgctatcatgtgtaattatag------ttaataactggaagataataactaagtttaaatattgctaagtttgaattcct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242183 115 -  13858734 tg-tttggga----------------------------------------------------------------------------------------------------------aagtgtaatcttttaagtaagttatttttgcgatcatgtgtaattatagttaa--ttaataactggaatagaataactaagtttaaatattgctaagtcggaattcct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267660 115 +  32716333 tg-tttggga----------------------------------------------------------------------------------------------------------aagtgtaatcttttaaataagttatttttgctatcatgtgtaattatagttaa--ttaataactggaatagaataactaagtttaaatattgctaagtttgaattcct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680398 111 - 185818997 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttaaataagttatttttgctatcatgtgtaattatagttaa--tgaataactggaatagaa----taagtttaaatattgctaagtttgaattcct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315038 111 - 192294377 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttaaataagttatttttgctatcatgtgtaattatagttaa--tgaataactggaatagaa----taagtttaaatattgctaagtttgaattcct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4938835 111 -  30496662 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttaaataagttatttttgctatcatgtgtaattatagttaa--tgaataactggaatagaa----taagtttaaatattgctaagtttgaattcct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13463509 115 +  21915920 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttaaataagttatttttgctatcatttgtaattatagttaa--tgaataactggaatagaataactaagtttaaatattgctaagtttgaattcct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19964648 115 -  90373283 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttagataagttatttttgctatcatgtgtaattatagttaa--tgaataactggaatagaataactaagtttaaatattgctaagtttgaattcct
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469021 115 +   7543664 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttaaataagttatttttgctatcatgtgcaattatagttaa--tgaataactggaatagaataactaagtttaaatattgctaagtttgaattcct
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5239372 115 -  13750039 tg-tttggga----------------------------------------------------------------------------------------------------------aagtctaatcttttaaataagttatttttgctatcatgtgtaattatagttaa--ttaataactggaatagaataattaagtttaaatattgctatgtttgaattcct
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26492848 116 +  50472720 tg-tttgaga----------------------------------------------------------------------------------------------------------aagtgtaatcttttaaataagttatttttgctgtcctatgtaattatggttaaaatt-ataactacaataaaataactaagtttaaatatttccaagtttgaattCtt
i calJac3.chr21             C 0 I 7920
s saiBol1.JH378168            8689391 117 +  13128814 tg-tttagga----------------------------------------------------------------------------------------------------------aagtgtaatcttttaaataagttatttttgctatcctatgtaattatagttaaaattaataactagaataaaataactatgtttaaatatttctaagtttgaactcct
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13919391 117 -  14377064 tg-tttggga----------------------------------------------------------------------------------------------------------aagtgtaatcttttaactaagttatttttcctattctatgtaattatggttaaagttaataaccagaataaaataactaattttaaatgtttctaagtttgcattcct
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9150974 117 -   9889416 tg-tttggga----------------------------------------------------------------------------------------------------------aagtataatcttttaaataagttatttttgctatcctatgtaattatagttaaaattaataactagaataaaatagctaagtttaaatatttgtaagtttgaattcct
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18034143 121 +  39895921 tgctttagga------------------------aatatatttttaaaaaaagttatttttgttaatatgtttattatagtt----------------------------------aa-----------------------------------------ttaaaatgaa--ttaatatttg--agagactaaggaggtttatgtatttctaagtgttaattcct
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2359545 110 +   3081153 tg-tttgggaaaatataatcttttt-------------------------------------------------------------------------------------------aa------------aaaggaatta----tgctaatatgt-tccctatatttat--tt--tgacatgaattaatgaattaggtttaaatatttctca-ttttaattcca
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=1060145.000000
s hg38.chr21_GL383579v2_alt    102269 113 +    201197 aataccataaattttgacagcta-ta-----cacaaaaatgacatgtggattcattaataatatttaagggtataaaggggtcctgacaccaaaagatttgtgagctgctgTTCTAGGT
s panTro5.chr21               8720626 113 +  33445071 aataccataaattttgacagcta-ta-----cacaaaaatgacatgtggattcattaataatatttaagggtataaaggggtcctgacaccaaaagatttgtgagctgctgTTCTAGGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259840 113 +  46275980 aataccataaattttgacagcta-ta-----cacaaaaatgacatgtggattcattaataatatttaagggtataaaggggtcctgacaccaaaagatttgtgagctgctgTTCTAGGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242298 111 -  13858734 aataccataaattttgacagcta-ta-----cacaaaaatgac--gtggattcattaataatatttaagggtataaaggggtcctgacatcaaaagatttgtgagctgctgTTCTAGGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267775 113 +  32716333 aataccataaattttgacagcta-ta-----cacaaaaatgacatgtggattcattaataatatttaagggtataaaggggtcctgacaccaaaagatttgtgagctgctgTTCTAGGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680509 113 - 185818997 aataccatacattttgacagcta-ta-----cacaaaaatgacatgtggattcattcataatatttaaggatataaagggattctgacaccaaaagatttgtgagctgctgTTCTAGGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315149 113 - 192294377 aataccatacattttgacagcta-ta-----cacaaaaatgacatgtggattcattcataatatttaaggatataaagggattctgacaccaaaagatttgtgagctgctgTTCTAGGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4938946 113 -  30496662 aataccatacattttgacagcta-ta-----cacaaaaatgacatgtggattcattcataatatttaaggatataaagggattctgacaccaaaagatttgtgagctgctgTTCTAGGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13463624 113 +  21915920 aataccatacattttgacagcta-ta-----cacaaaaatgacatgtggattcattcataatatttaaggatataaagggattctgacaccaaaagatttgtgagctgctgTTCTAGGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19964763 113 -  90373283 aataccatacattttgacagcta-ta-----cacaaaaatgacatgtggattcattcataatatttaaggatataaaggggttctgacaccaaaagatttgtgagctgctgTTCTAGGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469136 113 +   7543664 aataccatacattttgacagcta-ta-----cacaaaaatgacatgtggattcattcataatatttaaggatataaagggattctgacaccaaaagatttgtgagctgctgTTCTAGGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5239487 113 -  13750039 aataccatacattttgacagcta-ta-----cacaaaactgacatgtggattcattaataatatttaaggatataaaggggttctgacaccaaaagatttgtgagctgctgTTCTAGGT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8689508 109 +  13128814 aatatcacaaattttgacagcta-ta-----cacaaaaatgaca--tggattcatta--tatatttaaggatataatggggtcctgacaccaagagatttctgagctgctCTtttgggt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13919508 109 -  14377064 aagaccacaaattttgacagcta-ca-----cacaaaaatgaca--tggattcatta--tatatttaaggatataatggggtcctgacaccaagggatttgtgagctgctgTTTTGGGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151091 109 -   9889416 aataccacaaattttgacatcta-ta-----cacaaaaatgaca--tggatttatta--tatattcaaggatataatggggtcctgacaccaagagatttgtgagctgctgTTTTAGGT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18034264 113 +  39895921 aatatggta-agtttgacagacatta-----catcaaaaatatatctggggtccttaataatattgagggatctagcaggtcccttaaacaggaagatttgaaaggtgctgTTCCAGAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2359655 117 +   3081153 aatatgctaaatcttgatagata-taacaggcataaaaa-gatcttcagagtcttcaataatttttaagaatataaagtggctgtgatgacaaaatgtttgagagcaactCTTTTAGAC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e calJac3.chr21              26492964 7920 +  50472720 I
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=1748660.000000
s hg38.chr21_GL383579v2_alt    102382 216 +    201197 TCTAGAATC-------TTAATCAGTTTTCTTCTCCTGTTCTCATGAATCCATTATGGAAGTAGTA--TAGACTATTTTAGAA--TGATCCTTAGC----TATATTACTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGAAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
s panTro5.chr21               8720739 216 +  33445071 TCTAGAATC-------TTAATCAGTTTTCTTCTCCTGTTCTCATGAATCCATTATGGAAGTAGTA--TAGACTATTTTAGAA--TGATCCTTAGC----TATATTACTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGAAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22259953 216 +  46275980 TCTAGAATC-------TTAATCAGTTTTCTTCTCCTGTTCTCATGAATCCATTATGGAAGTAGTA--TAGACTATTTTAGAA--TGATCCTTAGC----TATATTACTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGAAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242409 216 -  13858734 TCTAGAATC-------TTAATCAGTTTTCTTCTCCTGTTCTCATGAATCCATTATGGAAGTAGTA--TAGACTATTTTAGAA--TGATCCTTAGC----TATATTACTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGAAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9267888 222 +  32716333 TCTAGAATCT-TAATGTTAATCAGTTTTCTTCTCCTGTTCTCATGAATCCATTGTGGAAGTAGTA--TAGACTATTTTAGAA--TGATCCTTAGC----TATATTACTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGCAGTTCATGCCAGTTCTTGG-AATAAAAAGAACATCTGGTAAAAATCTC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680622 222 - 185818997 TCTAGAATCT-TAATGTTAATCAGTTTTCTTCTCCTGTTCTCGTGAAGCCATGATGGAAGTAGTA--TAGAGTACTTTAGAA--TGATCCTTACC----TACATTATTGTTATTTGCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGGAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGGAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315262 222 - 192294377 TCTAGAATCT-TAATGTTAATCAGTTTTCTTCTCCTGTTCTCGTGAAGCCATGATGGAAGTAGTA--TAGAGTACTTTAGAA--TGATCCTTACC----TACATTATTGTTATTTGCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGGAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGGAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939059 222 -  30496662 TCTAGAATCT-TAATGTTAATCAGTTTTCTTCTCCTGTTCTCGTGAAGCCATGATGGAAGTAGTA--TAGAGTACTTTAGAA--TGATCCTTACC----TACATTATTGTTATTTGCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGGAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGGAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13463737 222 +  21915920 TCTAGAATCT-TAATGTTAATCAGTTTTCTTCTCCTGTTCTCGTGAAGCCATGATGGAAGTAGTA--TAGAGTACTTTAGAA--TGATCCTTACC----TACATTATTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCCAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGGAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19964876 212 -  90373283 TCTAGAATCT-TAATGTTAATCAGTTTTCTTCTCCTGTTCTCGTGAATCCATGATGAAAGTAGTA------------TAGAA--TGATCCTTACC----TATATTACTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTTTCAAGCAGTTCATGCCAGTTCCCGG-AATAAAAAGAACATCTGGGGAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469249 216 +   7543664 TCTAGAATC-------TTAATCAGTTTTCTTCTCCTGTTCTCGTGAAGCCATGATGGAAGTAGTA--TAGAGTACTTTAGAA--TGATCCTTACC----TACATTATTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCCAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGGAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5239600 222 -  13750039 TCTAGAATCT-TAATCTTAATCAGTTTTCTTCTCCTGTTCTCCTGAATCCATTATGGAAGTAGTA--TAGACTACTTTAGAA--TGATCCTTACC----TATATTATTGTTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTGTTTTCAACTCTCAAGCAGTTCATGCCAGTTCCTGG-AATAAAAAGAACATCTGGGGAAAATCCC----AGTTAGTGTTGTT--TTGTCCTAGTTCT-
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13919617 218 -  14377064 TCTAGAATC-------TTAATTAGTTTTCTTCTCCGGTTCTCATGAATCCATTATGGAAGTAGTA--TAGACTACATTCAAATGTGGTCCTTAGC----TATCTCACCATTATTTCCTGTTTTAAGCTTT----------GAGAAAAACTTATTTTCAACTCTCAAGCAGTTCATACCAGATCCTGG-AATAAAGAGAACATCTGGGAAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151200 218 -   9889416 TCTAGAATC-------TTAATCAGTTTTCTTCTCCTGTTCTCATGAGTCCATTATGGAAGTAGTA--CAGACTACATTCAAATGTGGTCCTTAAC----TGTCTTACCATTATTTCCTATTTTAAGCTTT----------GAGAAAAACTTATTTTCAACTCTCAAGCAGTTCATACCAGATCCTGG-AATAAAGAGAACATCTGGGAAAAATCCC----AATTAGTGTTGTT--TTGTCCTAGTTCT-
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18034377 240 +  39895921 TCTAGAATCTAGAGTGTTAATGAGGCTTTCCAACCTATTTCCAAGAGTTCAT-ATCACAGTGGTATGTAGCCTATTTTAAGA--TAGGTCGTAGC----TATCTTACTGTTATCACTTGTTTTAACTTTTTGAAAAAAAAAAAAAAAACATGCCTCTAATCCTCAAGCAGCTTATGCTAATACCTAA-GATGTTGAGAACACCTGGGAGATTTATCTGATAAATAGTGATGTCTGTTGCTCTGGTTCT-
i canFam3.chr31             C 0 I 200
s dasNov3.JH578070            2359772 225 +   3081153 TTTGAAACCC-GAGTGATAATCAGTTTTTCCTTGCTGTTCCCAAGAATCCCATAGGACAGTAGTA-------TACATTATGA--TGCATCATAGCACTGTATCTTCCTACTGTTCATTATTCTAAGTTCC-----------TGTAAAACTTGCTTCTACCTGTC-AGCAACTTATGCCATTTTGAGACAGTAAAGAGAGCACAGTAAAGAAGTTGTCTGTAAATAGTGATGTT--TTTACCCAGGTTAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e calJac3.chr21              26492964 7920 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=1175072.000000
s hg38.chr21_GL383579v2_alt    102598 137 +    201197 CTTATTTCCAGTTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTCTACTGTGTAAAAACTTAGCTCC--AC--------ctttgcac----agtggaa
s panTro5.chr21               8720955 137 +  33445071 CTTATTTCCAGTTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGTAAAAACTTAGCTCC--AC--------ctttgcac----agtggaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260169 137 +  46275980 CTTATTTCCAGTTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGTAAAAACTTAGCTCC--AC--------ctttgcac----agtggaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242625 137 -  13858734 CTTATTTCCAGTTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATATTGTGTAAAAACTTAGCTCC--AC--------ctttgcac----agtggaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268110 137 +  32716333 CTTATTTCCAGTTTTGCCTTAGAGATACAAACGAAAGACCCCTAATTATACATTTTAAAGTTTACCTTATCCTCTTC-CATTTGGCTGCTAGGTGATTATACTGTGTAAAAACTTAGCTCC--AC--------ctttgcac----agtggaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680844 137 - 185818997 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGCAAAAACTTAGCTCC--ag--------ctttgcac----agtggaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315484 137 - 192294377 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGCAAAAACTTAGCTCC--ag--------ctttgcac----agtggaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939281 137 -  30496662 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGCAAAAACTTAGCTCC--ag--------ctttgcac----agtggaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13463959 137 +  21915920 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGCGAAAACTTAGCTCC--ag--------ctttgcac----agtggaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965088 137 -  90373283 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTATTAGGTGATTATACTGTGTAAAAACTGAGCTCC--ag--------ctttgcgc----agcagaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469465 137 +   7543664 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGGTGATTATACTGTGCGAAAACTTAGCTCC--ag--------ctttgcac----agtggaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5239822 139 -  13750039 CTTATTTCCAATTTTTCCTTAGAGATACAAACGAAAGACCCCTAATTATAGATTTTAAAGTTTTCCTTATCCTCTTC-CATTTGGCTACTAGATGATTATACTGTGTAAAAACTTAGCTCCTGTg--------ctgtgcac----agtggaa
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13919835 137 -  14377064 CTTATTTCCAATTTTTCCTTAGAGATACAAACCAAAGACCCTTGATTATAGATTTAAAAATTTTTCTTATCCTCTTT-CACTTGACTACTAAGTGATCATACTGTGTAAAAAGTTAGCTCC--AC--------ctttgcac----agtggaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151418 136 -   9889416 CTTATTTCCAGTTTTTCCTTAGAGATACAAACCAAAGACCCCTGATTATAGA-TTAAAAATTTTTCTTATCCTCTTT-CACTTGACTACTAAGTGATCACACTGTGTAAAACGTTAGCTCC--GC--------ctttgcac----agtggaa
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18034817 141 +  39895921 TTCATTTCCAATGTGTCTTTAGAGATGAGAAAGAAAAACTTCAGATTATGGTTTTTTAAGTTTTACTTATCCTTTTCTTTTTTAGCTGCTA---------CTTGGGTAAAAACCTAGCTCC--AGTTTGAAAACTTTACATCTtgaagggga
i canFam3.chr31             I 200 C 0
s dasNov3.JH578070            2359997 127 +   3081153 CTCTTTTCCATTGTTTCCTTAAATATATGAAAATAAGATTCATGACATACTTTTTTAAAGTTTCCCTTATCCTCCTC-CACTTG-CTGCTCTGTGATATGACTGTGTAAAAATATAGCTCC--A---------------------AATGGAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e calJac3.chr21              26492964 7920 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=266467.000000
s hg38.chr21_GL383579v2_alt    102735 39 +    201197 gtat----------------------gctagctgatgaggtttatctgaggtgcaagtatt
s panTro5.chr21               8721092 39 +  33445071 gtat----------------------ggtagctgatgaggtttatctgaggtgcaagtatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260306 39 +  46275980 gtat----------------------ggtagctgatgaggtttatctgaggtgcaagtatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242762 39 -  13858734 gtat----------------------ggtagctgatgaggtttatctgaggtgcaagtatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268247 39 +  32716333 gcat----------------------cgtagctgatgaggtttatctgaggtgcaagtatt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160680981 39 - 185818997 atat----------------------tgtagctgatgaggcttatctgtggcacaagtatt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315621 39 - 192294377 atat----------------------tgtagctgatgaggcttatctgaggcacaagtatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939418 39 -  30496662 atat----------------------tgtagctgatgaggcttatctgaggcacaagtatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464096 39 +  21915920 atat----------------------tgtagctgatgaggcttatctgaggcacaagtatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965225 39 -  90373283 atat----------------------tgtagctgatgaggtttatctgaggcacaaatatt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469602 39 +   7543664 atat----------------------tgtagctgatgaggcttatctgaggcacaagtatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5239961 39 -  13750039 atat----------------------tgtagctgatgaggcgtatctgaggcacaagtatt
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13919972 39 -  14377064 gtat----------------------tacagctgatgagctttatctgaagcacaaatatt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151554 39 -   9889416 gtat----------------------tacagctgatgagctttatctgaagcacaagtatt
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18034958 60 +  39895921 gtatgtgtaactccaaaatatgccaatttagcaaatgcagtat-tttgagctgagggcagt
i canFam3.chr31             C 0 I 313
e micMur3.chr31              23691109 3948 +  47401472 I
e dasNov3.JH578070            2360124  0 +   3081153 C
e calJac3.chr21              26492964 7920 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=1006870.000000
s hg38.chr21_GL383579v2_alt    102774 154 +    201197 gctaattcaaaacttttcccaatacccggccatgatgacttgaaatat-ggtcgacattggcaattttcgacagtctctgcagagaatgAACCATCTTTGTTT-aaaaaaacgaaaacaaacaaaaaaac-aaaaaaaaaCTTAGCTCCATGTAAAG
s panTro5.chr21               8721131 149 +  33445071 gctaattcaaaacttttcccaatacccggccatgatgacttgaaatat-ggtcgacattggcaattttcgacagtctctgcagagaatgAACCATCTTTGTTT-aaaaaaacgaaaacaaacaaaaaaac------aaaaCTTAGCTCCATGTAAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260345 154 +  46275980 gctaattcaaaacttttcccaatacccggccatgatgacttgaaatat-ggtcgacattggcaattttcgacagtctctgcagagaatgAACCATCTTTGTTT-aaaaaaacgaaaacaaacaaaaaaac-aaaaaaaaaCTTAGCTCCATGTAAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242801 155 -  13858734 gctaattcaaaacttttcccaataaccggccatgatgacttgaaatat-ggccgacattggcaattttcgacagtctctacagagaatgAACCATCTTTGTTT-aaaaaaacgaaaacgaacaaaaaaacaaaaaaaaaaCTTAGCTCCATGTAAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268286 147 +  32716333 gcgaat--aaaactttccccaatactcggccatgacgacttgaaatat-ggtcgacattggcaatcttcgacagtctctacagagaatgAACCATTTTTGTTG-AAAAAAACGAAAACAAACGAACAGAA------AAAACTTAGCTCCATGTAAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681020 152 - 185818997 gctaattcaaaacctttcccaatacccggccatgacgacttaaaatat-ggtgaacattggcaattttcgacagtctctacagagaatgAACCATCTTTGTTT-AAAAAAATGAAAG-AAACGAAAACAA--ACAAAAAACTTAGGTCCATGTAAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315660 152 - 192294377 gctaattcaaaacctttcccaatacccggccatgacgacttaaaatat-ggtcaacattggcaattttcgacagtctctacagagaatgAACCATCTTTGTTT-AAAAAAATGAAAG-AAACGAAAACAA--ACAAAAAACTTAGGTCCATGTAAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939457 152 -  30496662 gctaattcaaaacctttcccaatacccggccatgacgacttaaaatat-ggtcaacattggcaattttcgacagtctctacagagaatgAAGCATCTTTGTGT-AAAAAAATGAAAG-AAACGAAAACAA--ACAAAAAACTTAGGTCCATGTAAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464135 152 +  21915920 gctaattcaaaacctttcctaatacccggccatgacgacttaaaatat-ggtcaacattggcaattttcgacagtctctacagagaatgAACCATCTTTGTTT-AAAAAAATGAAAG-AAACGAAAACAA--ACAAAAAACTTAGGTCCATGTAAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965264 153 -  90373283 gctaattcaaaaactttcccaataccccgtcatgacgacttaaaatat-ggtcaacctcggcaattttcgacagtctctacagagaatgAACCATCTTTGTTTAAAAAAAATGAAAG-AAATGAAAACAA--ACAAAAATCTTAGCTCCATGTAAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469641 152 +   7543664 gctaattcaaaacctttcccaatacccggccatgacgacttaaaatat-ggtcaacattggcaattttcgacagtctctacagagaatgAACCATCTTTGTTT-Taaaaaatgaaag-aaacaaaaacaa--acaaaaaaCTTAGGTCCATGTAAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240000 152 -  13750039 gctgattcaaaacctttcccaatacccggccataacgacttaaaatat-ggtcaaccttggcaattttcgacagtctctacagagaatgAACCATCTTTGTTT-aaaaaaatgaaag-aaacaaaaacaa--acaaaaaaCTTAGCTCCATGTAAAG
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13920011 152 -  14377064 gcaaattcaaaacttttcccagtaccccgcattgacaacttgaaatatgggttgacattcacaatttttgacagtctcaacagagaatgAGCCATTTTTGTTT-aaagaaacaaaaacaaacaa--acaa--acgaaaaacTTAGCTCCATCTAAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151593 143 -   9889416 gcaaattcaaaacttttcccaatacctcacattgacgacttgaaatat-ggtcgacattggcaatttttgacagtctctacagagaatgAGCCGTTTTTGTTT-AAAGAAACAAAAACAAACA------------AAAAACTTAGCTCCATCTAAAG
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e dasNov3.JH578070            2360124   0 +   3081153 C
e canFam3.chr31              18035018 313 +  39895921 I
e calJac3.chr21              26492964 7920 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=634755.000000
s hg38.chr21_GL383579v2_alt    102928 80 +    201197 GACTTTACATCTAACTTTGTGTTGAATGT-ACGGTCACATAATTTTAC-AAACCTCTTCCGTTTAACTTGCCCAGCTGTGTA
s panTro5.chr21               8721280 80 +  33445071 GACTTTACATCTAACTTTGTGTTGAATGT-ACGGTCACATAATTTTAC-AAACCTCTTCCGTTTAACTTGCCCAGCTGTGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260499 80 +  46275980 GACTTTACATCTAACTTTGTGTTGAATGT-ACGGTCACATAATTTTAC-AAACCTCTTCCGTTTAACTTGCCCAGCTGTGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8242956 80 -  13858734 GACTTTACATCTAACTTTGTGTTGAATGT-ACAGTCACATAATTTTAC-AAACCTCTTCCGTTTAACTTGCCCAGCTGTGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268433 80 +  32716333 GACTTTACATTTGACTTTGTGTTGAATGT-ACGGTCACTTAATTTTAC-AAACCTCCTCCGTTTAACTTGCCCAGCTGTGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681172 80 - 185818997 GACTTTACATCTAAATTTGTATTGAATGT-ACGGTCACTTAATTTTAC-AAACCGCCTCCATTTAACTTGCCCAGCTGTGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315812 80 - 192294377 GACTTTACATCTAAATTTGTATTGAATGT-ACGGTCACTTAATTTTAC-AAACCGCCTCCATTTAACTTGCCCAGCTGTGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939609 80 -  30496662 GACTTTACATCTAAATTTGTATTGAATGT-ACGGTCACTTAATTTTAC-ATACCGCCTCCATTTAACTTGCCCAGATGTGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464287 80 +  21915920 GACTTTACATCTAAATTTGTATTGAATGT-ACGGTCACTTAATTTTAC-AAACCGCCTCCATTTAACTTGCCCAGCTGTGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965417 80 -  90373283 GACTTTACATCTAAATTTGTATTCAGTGT-ACGGTCACTTAATTTTAC-AAACCTCCTCCATTTAACTTGCCCAGCTGTGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469793 80 +   7543664 GACTTTACATCTAAATTTGTATTGAATGT-ATGGTCACTTAATTTTAC-AAACCGCCTCCATTTAACTTGCCCAGCTGTGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240152 80 -  13750039 GACTTTACATCTAAATTTGTATTGAATGT-ACGGTCACTTAATTTTAC-AAACCTCCTCCATTTAACTTGCCCAGCTGTGTA
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13920163 80 -  14377064 GACTTTATATCTAACCTTGTGTTGGATGT-ACAGTCCCTTAATTTTAC-AACCCTCCTCCATTTTGCTTGCCCAACTGCATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151736 80 -   9889416 GAGTTTATATCTAACTTTGTGTTGAATGT-ACAGTCCCTTAATTTTAC-AGCCCTCCTCCATTTAGCTTGCCCAGCTGAGTA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2360124 81 +   3081153 GACTTTATGTCTAACTTCATG-TAATTGTAATGGTCACTTAATTTTACAAAATCTTCTTCATCTAGCTTGCCCAGAAGTACA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e canFam3.chr31              18035018 313 +  39895921 I
e calJac3.chr21              26492964 7920 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=267039.000000
s hg38.chr21_GL383579v2_alt    103008 31 +    201197 ATTAACGATGGTACAATATG-CA-GTTCTAAGA
s panTro5.chr21               8721360 31 +  33445071 ATTAACGATGGTACAATATG-CA-GTTCTAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260579 31 +  46275980 ATTAACGATGGTACAATATG-CA-GTTCTAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243036 31 -  13858734 ATTAACGATGGTACAATATG-CA-GTTCTAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268513 31 +  32716333 ATTAACGATGGTGCAATATG-CA-GTTCTAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681252 31 - 185818997 ATTAACGATGGTGCAATAGG-CA-GTTCTAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315892 31 - 192294377 ATTAACGATGGTGCAATAGG-CA-GTTCTAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939689 31 -  30496662 ATTAACGATGGTGCAATAGG-CA-GTTCTAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464367 31 +  21915920 ATTAACGATGGTGCAATAGG-CA-GTTCTAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965497 31 -  90373283 ATTAACGATGGTGCAATAGG-CA-GTTCTAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469873 31 +   7543664 ATTAACGATGGTGCAATAGG-CA-GTTCTAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240232 30 -  13750039 ATTAACGATGGTGCAATAGG-C--GTTCTAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26500884 32 +  50472720 ATTAACAATGGTGCAATAGGCCA-GAACTAAGA
i calJac3.chr21             I 7920 C 0
s cebCap1.NW_016107322v1     13920243 31 -  14377064 ATTAACAATGGTGCAACAGG-CA-GTGCTAAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9151816 31 -   9889416 ATTAACAATGGTGCAATAGG-CA-GTACTAAGA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2360205 32 +   3081153 ATTTCGGATGGTGAGATATT-CACTTTCTAATG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e canFam3.chr31              18035018 313 +  39895921 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=90018.000000
s hg38.chr21_GL383579v2_alt    103039 52 +    201197 CCC-TTGCAAGCCA--------------------------------------------------------------A------------------------A-T-TACAAGTCTTCA--GACC------CTTACAAGTC---------------------------------TAAGACCCTT
s panTro5.chr21               8721391 52 +  33445071 CAC-TTGCATGTCA--------------------------------------------------------------A------------------------A-T-TACAAGTCTTCA--GACC------CTTACAAGTC---------------------------------TAAGACCCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260610 52 +  46275980 CAC-TTGCAAGTCA--------------------------------------------------------------A------------------------A-T-TACAAGTCTTCA--GACC------CTTACAAGTC---------------------------------TAAGACCCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243067 52 -  13858734 CCC-TTGCAAGTCA--------------------------------------------------------------A------------------------A-T-TACAAGTCTTCA--GACC------CTTACAAGTC---------------------------------TAAGACCCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268544 35 +  32716333 CCC-TTGCAAGTCA--------------------------------------------------------------A------------------------A-T-TACAAGTTTTC----------------------------------------------------------AGAGCCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681283 89 - 185818997 CCC-TTACAAGTCTAAGCT--------------------------------------GTATAATTAACGGCGGTGCA------------------------A-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGCCTTCAGACCCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167315923 89 - 192294377 CCC-TTACAAGTCT--------------------------------------------------------------AAGCTGTATATTTAACGGCGGTGCAA-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGCCTTCAGACCCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939720 89 -  30496662 CCC-TTACAA--------------------------------------------------------------GTCTAAGCTGTATAATTAACGGCGGTGCAA-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGCCTTCAGACCCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464398 89 +  21915920 CCC-TTACAAGTCTAAGCT-------------------GTATAATTAACGGCGGTGC-------------------A------------------------A-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGCCTTCAGACCCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965528 89 -  90373283 CCC-TGACAAGTCT--------------------------------------------------------------AAGCCATGTAATTAATGGTGGTGCAA-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGTCTTCAGACCCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469904 89 +   7543664 CCC-TTACAAGTCT--------------------------------------------------------------AAGCTGTATAATTAACGGCGGTGCAA-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGTCTTCAGACCCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240262 89 -  13750039 CCC-TTACAAGTCTAAGCTGTGTAATTAACAGGGGTGC--------------------------------------A------------------------A-T-AAGCAGTTCTAA--GACC------CTTACAAGTCAA--------------------ATTACAAGTCTTCAGACCCTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26500916 45 +  50472720 CCCGTTAAAAATCC--------------------------------------------------------------A------------------------ATT-TATAAGTCTTCA--GATC------TTTACAA------------------------------------CAAG------
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13920274 52 -  14377064 CCC-TTAAAAGTCA--------------------------------------------------------------A------------------------A-T-TACAAGTCTTCA--GTCC------TTTGCAAGTC---------------------------------TAAGACCCTT
i cebCap1.NW_016107322v1    C 0 I 257
s aotNan1.NW_018487195v1      9151847 52 -   9889416 CCC-TTAAAAGTCA--------------------------------------------------------------A------------------------A-T-TACAAGTCTTCA--GACC------CTTACAAATC---------------------------------TAAGACCCTT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18035331 96 +  39895921 ctc-ttgctagtcatattg---------------------------------------------------------t------------------------a-t-gtcagattttta--gaccaaagaatttagaagggaagaaaaattttCCACCTCTAGAGTATGATTGTACAGTCACTT
i canFam3.chr31             I 313 I 1
s dasNov3.JH578070            2360237 39 +   3081153 -TC-CTAAAAAACA--------------------------------------------------------------A------------------------A-TGTAAAAATAGTAATGTATT------TTTTC------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=14704.000000
s hg38.chr21_GL383579v2_alt    103091 3 +    201197 ACA
s panTro5.chr21               8721443 3 +  33445071 ACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260662 3 +  46275980 ACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243119 3 -  13858734 ACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268579 3 +  32716333 ACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681372 3 - 185818997 ACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316012 3 - 192294377 ACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939809 3 -  30496662 ACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464487 3 +  21915920 ACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965617 3 -  90373283 ACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469993 3 +   7543664 ACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240351 3 -  13750039 ACA
i colAng1.NW_012120598v1    C 0 C 0
s aotNan1.NW_018487195v1      9151899 3 -   9889416 ACA
i aotNan1.NW_018487195v1    C 0 I 268
s canFam3.chr31              18035428 2 +  39895921 AT-
i canFam3.chr31             I 1 I 10
s dasNov3.JH578070            2360276 3 +   3081153 TCT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e calJac3.chr21              26500961 0 +  50472720 C
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=115956.000000
s hg38.chr21_GL383579v2_alt    103094 24 +    201197 CTTC-------------------------TAAGACCCTTACAAG-------------TCTAA
s panTro5.chr21               8721446 24 +  33445071 CTTC-------------------------TAAGACCCTTACAAG-------------TCTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260665 24 +  46275980 CTTC-------------------------TAAGACCCTTACAAG-------------TCTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243122 24 -  13858734 CTTC-------------------------TAAGACCCTTACAAG-------------TCTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268582 24 +  32716333 CTTC-------------------------TAAGACCCTTACAAG-------------TCTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681375 24 - 185818997 TGTC-------------------------TAAGACCCTTACAAG-------------TCGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316015 24 - 192294377 TGTC-------------------------TAAGACCCTTACAAG-------------TCGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939812 24 -  30496662 TGTC-------------------------TAAGACCCTTACAAG-------------TCGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464490 24 +  21915920 TGTC-------------------------TAAGACCCTTACAAG-------------TCGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965620 24 -  90373283 TGTC-------------------------TAAGACCCTTACAAG-------------TCTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3469996 24 +   7543664 TGTC-------------------------TAAGATCCTTACAAG-------------TCGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240354 24 -  13750039 TGTC-------------------------TAAGACCCTTACATG-------------TCTAA
i colAng1.NW_012120598v1    C 0 I 45
s calJac3.chr21              26500961 23 +  50472720 -TTT-------------------------TAGGACTCTTACAAG-------------TTTTA
i calJac3.chr21             C 0 I 1
s canFam3.chr31              18035440 62 +  39895921 TGTCTCATGTAGCTGCCCAGCTGTAAAATTAAGACCCCTAAAAATAATTATGTGTATTCTTA
i canFam3.chr31             I 10 I 1
s dasNov3.JH578070            2360279  5 +   3081153 CTTC-------------------------T--------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=43958.000000
s hg38.chr21_GL383579v2_alt    103118 10 +    201197 TTATTTTGCG
s panTro5.chr21               8721470 10 +  33445071 TTATTTTGCG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260689 10 +  46275980 TTATTTTGCG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243146 10 -  13858734 TTATTTTGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268606 10 +  32716333 TTATTTTGCG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681399 10 - 185818997 TTCTTTTGCG
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167316039 10 - 192294377 TTCTTTTGCG
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4939836 10 -  30496662 TTCTTTTGCG
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13464514 10 +  21915920 TTCTTTTGCG
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19965644 10 -  90373283 TTCTTTTGCG
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3470020 10 +   7543664 TTCTTTTGCG
i manLeu1.NW_012103476v1    C 0 I 1
s calJac3.chr21              26500985  9 +  50472720 ttctttttt-
i calJac3.chr21             I 1 C 0
s canFam3.chr31              18035503 10 +  39895921 TTCTTTTGTA
i canFam3.chr31             I 1 I 2
s dasNov3.JH578070            2360284  7 +   3081153 TTATCAG---
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5240378 45 -  13750039 I

a score=84070.000000
s hg38.chr21_GL383579v2_alt    103128 9 +    201197 TTTTTTGTT
s panTro5.chr21               8721480 9 +  33445071 TTTTTTGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260699 9 +  46275980 TTTTTTGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243156 9 -  13858734 TTTTTTGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268616 9 +  32716333 TTTTTTGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681410 9 - 185818997 TTTTTTGTT
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167316050 9 - 192294377 TTTTTTGTT
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4939847 9 -  30496662 TTTTTTGTT
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13464525 9 +  21915920 TTTTTTGTT
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               19965655 9 -  90373283 TTTTTTGTT
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3470031 9 +   7543664 TTTTTTGTT
i manLeu1.NW_012103476v1    I 1 C 0
s colAng1.NW_012120598v1      5240423 9 -  13750039 TTTTTTGTT
i colAng1.NW_012120598v1    I 45 C 0
s calJac3.chr21              26500994 9 +  50472720 ttttttgtt
i calJac3.chr21             C 0 I 601
s canFam3.chr31              18035515 9 +  39895921 TTTTTTGTT
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2360291 9 +   3081153 TTTTGTGTT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=189820.000000
s hg38.chr21_GL383579v2_alt    103137 26 +    201197 TCATATTTACTGCCCCACAAGACAAT
s panTro5.chr21               8721489 26 +  33445071 TCATATTTACTGCCCCACAAGACAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260708 26 +  46275980 TCATATTTACTGCCCCACAAGACAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243165 26 -  13858734 TCATATTTACTGCCCCACAAGACAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268625 26 +  32716333 TCATATTTACTGCCCCACAAGACAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681419 25 - 185818997 TCATATTCA-TGACCCACAAGGCAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316059 26 - 192294377 TCATATTTACTGACCCACAAGGCAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939856 26 -  30496662 TCATATTTACTGACCCACAAGGCAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464534 26 +  21915920 TCATATTTACTGACCCACAAGGCAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965664 26 -  90373283 TTATATTTACTGACCCACAAGGCAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3470040 26 +   7543664 TCATATTTACTGACCCACAAGGCAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240432 26 -  13750039 TCATATTTACTGACCCACGAGACAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26501604 26 +  50472720 TCATATTTACTGCCCCATAGGACAAt
i calJac3.chr21             I 601 I 229
s canFam3.chr31              18035524 26 +  39895921 TAGTATCTGTTGCCCTACAAAACAAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2360300 25 +   3081153 TAGTAT-CACTGCCCCACTGGACATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=141590.000000
s hg38.chr21_GL383579v2_alt    103163 29 +    201197 ATATATCCAC------ATTGTAATATACAAATTAT
s panTro5.chr21               8721515 29 +  33445071 ATATATCCAC------ATTGTAATATACAAATTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260734 29 +  46275980 ATATATCCAC------ATTGTAATATACAAATTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243191 29 -  13858734 ACATATCCAC------ATTGTAATATACAAATTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268651 29 +  32716333 ATATATCCAC------ATTGTAATATACAATTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681444 35 - 185818997 ATACAACCATATTACAACTATAATAGACAAATTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316085 35 - 192294377 ATACAACCATATTACAACTATAATAGACAAATTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939882 35 -  30496662 ATACAACCATATTACAACTATAATAGACAAATTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13464560 35 +  21915920 ATACAACCATATTACAACTATAATAGACAAATTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19965690 29 -  90373283 ATACAACCAT------ACTGTAATAGACAAATTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3470066 35 +   7543664 ATACAACCATATTACAACTATAATAGACAAATTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240458 29 -  13750039 ATACAACCAT------ACCGTAATAGACAAATTAT
i colAng1.NW_012120598v1    C 0 I 338
s canFam3.chr31              18035550 29 +  39895921 TCATAGCCAC------ACTGCACTAGACAAATTAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2360325 27 +   3081153 TCATTCCCAC------ACTGCACTAGAAAAAAT--
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e calJac3.chr21              26501630 229 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=52449.000000
s hg38.chr21_GL383579v2_alt    103192 29 +    201197 ATAAATTCCAGGCCGCCCACGG----ttttttt
s panTro5.chr21               8721544 33 +  33445071 ATAAATTCCAGGCCGCCCACGGttttttttttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260763 32 +  46275980 ATAAATTCCAGGCCGCCCACGG-tttttttgtt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243220 29 -  13858734 ATAAATTCCAGGCCGGCCACGG----ttttttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268680 30 +  32716333 -TTAATTCCAGGCCGCGCACgt--ttttttgtt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681479 23 - 185818997 -TTAATTCCAGGCCTCCCCCAC----TC-----
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316120 23 - 192294377 -TTAATTCCAGGCCTCCCCCAC----TC-----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939917 28 -  30496662 -TTAATTCCAGGCCTCCCCCAC----TCttttt
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13464595 28 +  21915920 -TTAATTCCAGGCCTCCCCCAC----TCtttct
i cerAty1.NW_012002954v1    C 0 I 2
s chlSab2.chr2               19965719 21 -  90373283 -TTAATTCCAGGCCTCGTCCAC-----------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3470101 23 +   7543664 -TTAATTCCAGGCCTCCCCCAC----TC-----
i manLeu1.NW_012103476v1    C 0 C 0
s canFam3.chr31              18035579 16 +  39895921 -ATCATTCCAAGTCTCC----------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2360352 26 +   3081153 ---CATTCCAGGTCTCCAAATG----TTTTGCT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e calJac3.chr21              26501630 229 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5240487 338 -  13750039 I

a score=3535356.000000
s hg38.chr21_GL383579v2_alt    103221 595 +    201197  
s panTro5.chr21               8721577 595 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22260795 595 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243249 595 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9268710 591 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160681502 595 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316143 595 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4939947 597 -  30496662  
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13464625 599 +  21915920  
i cerAty1.NW_012002954v1    I 2 C 0
s chlSab2.chr2               19965740 596 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3470124 599 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5240825 588 -  13750039  
i colAng1.NW_012120598v1    I 338 C 0
s canFam3.chr31              18035595 582 +  39895921  
i canFam3.chr31             C 0 I 522
s dasNov3.JH578070            2360378 568 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e calJac3.chr21              26501630 229 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=2247913.000000
s hg38.chr21_GL383579v2_alt    103816 379 +    201197 ATTTTGGTATTTTTTTAAGATGAAAGCTGAAATTTGGAATCAGGATGTTTTTAAGTAAAGATAAAAAGGACATGCAGCCAATCAAATCAAATCAAACTTGAGATTATAATT------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTCATGGACGA-AGG-TATC-TATTG---CTAACATGAAATTTGATTAAA----ATGTAAA-----TTATTGTTTGAGCTAACTAATCCAAACCTAGAAAAAGTACAAAAGCATCAAAATGAAAACAGGTTTGAATGTTTGCTTTATTGATAATTATCCCATTAATCACTACCAAACTTCAATATTTTAAAA--ATAAAAATCAGCCTCATGTATttagttttttgtttgcttgtttgtttAAAAGT-----
s panTro5.chr21               8722172 374 +  33445071 ATTTTGGTATTTTTTTAAGATGAAAGCTGAAATTTGGAATCAAGATGTTTTTAAGTAAAGATAAAAAGGACATGCAGCC-----AATCAAATCAAACATGAGATTATAATT------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTCGTGGACGA-AGA-TATC-TATTG---CTAACATGAAATTCGATTAAA----ATGTAAA-----TTATTATTTGAGCTAACTAATCCAAACCTAGAAAAAGTACAAAAGCATCAAAATGAAAACAGGTTTGAATGTTTGCTTTATTGATAATTATCCCATTACTCACTACCAAACTTCAATATTTTAAAA--ATAAAAATCAGCCTCATGTATttagttttttgtttgcttgtttgtttAAAAGT-----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22261390 373 +  46275980 ATTTTGGTA-TTTTTTAAGATGAAAGCTGAAATTTGGAATCAAGATGTTTTTAAGTAAAGATAAAAAGGACATGCAGCC-----AATCAAATCAAACATGAGATTATAATT------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTCATGGATGA-AGA-TATC-TATTG---CTAACATGAAATTCGATTAAA----ATGTAAA-----TTATTATTTGAGCTAACTAATCCAAACCTAGAAAAAGTACAAAAGCATCAAAATGAAAACAGGTTTGAATGTTTGCTTTATTGATAATTATCCCATTACTCACTACCAAACTTCAATATTTTAAAA--ATAAAAATCAGCCTCATGTATttagttttttgtttgcttgtttgtttAAAAGT-----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8243844 379 -  13858734 ATTTTGGTATTGTTTTAAGATGAAAGCTGAAATTTGGAATCAAGATGTTTTTAAGTAAAGATAAAAAGGACATGCAGCCAATCAAATCAAATCAAACATGAGATTATAATT------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTCATGGACGA-AGA-TATC-TATTG---CTAACATGAAATTCGATTAAA----ATGTGAA-----TTATTATTTGAGCTAACTAATCCAAACCTAGGAAAAGTACAAAAGCATCAAAATGAAAACAGGTTTGAATGTTTGCTTTATTGATAATTATCCCATTAATCACTACCAAACTTCAATATTTTAAAA--ATAAAAATCAGCCTCATGTATttagttttttgtttgcttgtttgtttAAAAGT-----
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9269301 379 +  32716333 ATTTTGGTATTTTTTTAAGATGAAAGCTGAAATTTGGAATCAAGATGTTTTTAAGTAAAGAAAAAAAGGGCATGCTGCCAATCAAATCAAATCAAACATGAGATTATAATT------ATGAAATAATTTCTTGTGAAAATCCTAATTCCAATTTTGTCATGGACGA-AGA-TATC-TATTA---CTAACATGAAATTCGCTTAAA----ATATAAA-----TTATTATTTGAGCTAACTAATCCAAACCTAGAAAAAGTACAAAAGCATCAAAATGAAAACAGATTTGAATGTTTGCTTTATTGATAATTATCCCATTAATCACTTCCAAACTTCAATATTTTAAAA--ATAAAAATCAGCCTCATGTATTTAGTTTTTCGTTTGCTTGTTTGTTTAAAAGT-----
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160682097 374 - 185818997 ATTTTGGCATTTTTTTAATGTGAAAGCTGAAATTTGGAATCAAGATGTGTTTAAGCAAAG-AAAAAAGGATATGCAGCCAATCAAATCAAATCAAACATTAGATTAAAATC------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTTGTGGACCA-AGA-TATC-TATTA---CTAATATGAAATTTGATTAAA----ATACAAA-----TTATTATTT----CAACTAATCCAAACCTAGAAAAAGTACAAAGGCACCAAAATGAAAACAGATTTGAGTGTTTGTTTTATTGATAATAATTCCATTAACCACTTCCAAACTTCAATATTTTTAAA--ATAAAAATCAGCCTCATGTATTTAGCTTTCTGTTTGCTTGTTTGTTTAAAAGT-----
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167316738 374 - 192294377 ATTTTGTT-TTTTTTTAATGTGAAAGCTGAAATTTGGAATCAAGATGTGTTTAAGCAAAGAAAAAAAGGATATGCAGCCAATCAAATCAAATCAAACATTAGATTAAAATC------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTTGTGGACCA-AGA-TATC-TATTA---CTAATATGAAATTTGATTAAA----ATACAGA-----TTATTATTT----CAACTAATCCAAACCTAGAAAAAGTACAAAGGCACCAAAATGAAAACAGATTTGAGTGTTTGTTTTATTGATAATAATTCCATTAACCACTTCCAAACTTCAATATTTTTAAA--ATAAAAATCAGCCTCATGTATTTAGCTTTCTGTTTGCTTGTTTGTTTAAAAGT-----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4940544 375 -  30496662 ATTTTGGTATTTTTTTAATGTGAAAGCTGAAATTTGGAATCAAGATGTGTTTAAGCAAAGAAAAAAAGGATATGCAGCCAATCAAATCAAATCAAACATTAGATTAAAATC------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTTGTGGACCA-AGA-TATC-TATTA---CTAATATGAAATTTGATTAAA----ATACAAA-----TTATTATTT----CAACTAATCCAAACCTAGAAAAAGTACAAAGGCACCAAAATGAAAACAGATTTGAGTGTTTGTTTTATTGATAATAATTCCATTAACCACTTCCAAACTTCAATATTTTTTAA--ATAAAAATCAGCCTCATGTATTTAGCTTTCTGTTTGCTTGTTTGTTTAAAAGT-----
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13465224 375 +  21915920 ATTTTGGTATTTTTTTAATGTGAAAGTTGAAATTTGGAATCAAGATGTGTTTAAGCAAAGAAAAAAAGGATATGCAACCAATCAAATCAAATCAAACATTAGATTAAAATC------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTTGTGGACCA-AGA-TATC-TATTA---CTAATATGAAATTTGATTAAA----ATACAAA-----TTATTATTT----CAACTAATCCAAACCTAGAAAAAGTACAAAGGCACCAAAATGAAAACAGATTTGAATGTTTGTTTTATTGATAATAATTCCATTAACCACTTCCAAACTTCAATATTTTTAAA--ATAAAAATCAGCCTCATGTATTTAGCTTTTTGTTTGCTTGTTTGTTTAAAAGT-----
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19966336 375 -  90373283 ATTTTGGTATATTTTTAATGTGAAAGCTGAAATTTGGAATCAAGATGTTTTTAAGCAAAGAAAAAAAGGATATGCAACCAATCAAATCAAATCAAACATTCGATTAAAATT------ATAAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTCGTGGACTA-AGG-TACC-TCTTA---CTAATATGAAATTTGATTAAA----ATATAAA-----TTATTATTT----GAACTAATCCAAACCTAGAAAAAGTACAAAAGCATCAAAATGAAAACAGATTTGAATGTTTGTTTTATTGATAATTATTCCATTAATCACTTCCAAACTTGAATATTTTAAAA--ATAAAACTCAGCCTCATGTATTTAGCTTTTTGTTTGCTTGTTTGTTTAAAAGT-----
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3470723 372 +   7543664 ATTTTGGTATTTTTTTAATGTGAAAGCTGAAATTTGGAATCAAGATGTGTTTAAGCAAAGAAAAAAAGGATATGCAGCCAATCAAATCAAATCAAACATTAGATTAAAATC------ATGAAATAATTTCATGTGAAAATCCTAATTCCAATTTTGTTGTGGACCA-AGA-TATC-TATTA---CTAATATGAAATTTGATTAAA----ATACAA--------ATTATTT----CAACTAATCCAAACCTAGAAAAAGTACAAAGGCACCAAAATGAAAACAGATTTGAATGTTTGTTTTATTGATAATAATTCCATTACCCACTTCCAAACTTCAATATTTTTAAA--ATAAAAATCAGCCTCATGTATTTAGCTTTTTGTTTGCTTGTTTGTTTAAAAGT-----
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5241413 374 -  13750039 ATTTTGGT-TTTTTTTAATGTGAAAGCTGAAATTTGGAATCAAGATGTTTTTAAGCAAAGAAAAAAAGGATATGCAGCCAATCAAATCAAATCAAACATTAGATTAAAATT------ATGAACTAATTTCATGTGAAAATCCTAATTCCAATTTTGTCGTGGACCA-AGG-TATC-TATTA---CTAATATGAAACTCGATTAAA----ATATAAA-----TTATTATTT----GAACTAATCCAAACCTAGAAAAAGTACAAAAGCACCAAAATGAAACCAGATTTGAATGTTTGTTTTATTGATAATAATTCCATTAATCACTTCCAAACTTCAATATTTTTAAA--ATAAAAATCTGCCTCATGTATTTAGCTTTTTGTTTGCTTGTTAGTTTAAAAGT-----
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18036699 385 +  39895921 ATTATGGACATTTTTTATCTTGAAGGTTGATACTTACAAATAAGATTCTTTAGAGGAAGAAAAAAGAAGACACGCAGTTAACAAAGTACAATAAAATAT-ATACCATAGTTCTAAGAATAAAATAATTTTCTGGGAAAAACCTAATTCCAATTTTGTAGTAGTCCAGAGT-CATC-TATTATTGTTAATATGAAATTCTATTAAA----ACACAAGTTAATTTATAACTT----GAAGTAATTCAAACCCAGAAAAATTATAGAAACTTTGAAGAGAAAACAGATTTGGATATTTCCTTTATTGATATTAATGACATTAATCTCTCACAAACTGAAAACTTTATAAA--AAAAATAACA---TCATGT-Tggggtgtcttggtaacttaatcagttaagcgt-----
i canFam3.chr31             I 522 I 219
s dasNov3.JH578070            2360946 355 +   3081153 ATTATGGTACTATT------TGAAACATGAACATTAGAATACAGTTATTTATGAG------AGAAAAAGACGTGCAGTTAATGAAATAAAATGCAATGT--GATT----CT------GTGAAACACTTTTATGTGAAATTCTAAATTCCGATTTTGCTGTACATAA-GGAGTGTCTTTTTG---ATAATAATGAATTCTATTAGAACCTATATCAA-----TTTCTATTT---TAAAATAATCC-AACACAGAAAAGCCACAAAAGCCTTAGAAAGACAGCAGCTTTGGATATCTCTTTTATTGATA---------------ACACCTAAATGCCAAGGTATTTAAATTTTAAAAATCAACAGAATACATTTAGTTTTATGGTTGCTTATTTGTTTATTTTTCAACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e calJac3.chr21              26501630 229 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=3757983.000000
s hg38.chr21_GL383579v2_alt    104195 661 +    201197  
s panTro5.chr21               8722546 661 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22261763 661 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8244223 660 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9269680 664 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160682471 654 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167317112 654 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4940919 654 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13465599 654 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19966711 654 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3471095 654 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5241787 653 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2361301 607 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920326 257 -  14377064 I
e canFam3.chr31              18037084 219 +  39895921 I
e aotNan1.NW_018487195v1      9151902 268 -   9889416 I
e calJac3.chr21              26501630 229 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=70039.000000
s hg38.chr21_GL383579v2_alt    104856 8 +    201197 -GGGTAGTC
s panTro5.chr21               8723207 8 +  33445071 -GGGTAGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262424 8 +  46275980 -GGGTAGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8244883 8 -  13858734 -GGGTAGTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270344 8 +  32716333 -GGGCAGTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683125 8 - 185818997 -GGGTAGTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167317766 8 - 192294377 -GGGTAGTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941573 8 -  30496662 -GGGTAGTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466253 8 +  21915920 -GGGTAGTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967365 8 -  90373283 -GGGTATTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3471749 8 +   7543664 -GGGTAGTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242440 8 -  13750039 -GGGTAGTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26501859 8 +  50472720 -GGGTAGTA
i calJac3.chr21             I 229 C 0
s cebCap1.NW_016107322v1     13920583 8 -  14377064 -GGGTAGTC
i cebCap1.NW_016107322v1    I 257 C 0
s aotNan1.NW_018487195v1      9152170 8 -   9889416 -GGGTAGTC
i aotNan1.NW_018487195v1    I 268 C 0
s dasNov3.JH578070            2361908 8 +   3081153 GGTGTCGT-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e canFam3.chr31              18037084 219 +  39895921 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=2487540.000000
s hg38.chr21_GL383579v2_alt    104864 272 +    201197 TGATTTAATGGATGTGAGCATAAACTTATTTCAGAG-TTTAT-TCATATTT---AAGT--GTCTTC-CTTATAAAATACAATGAAGTTGTGAAAAGTACAGGTCTATC--ATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-GTCTAATTCATCC-----A-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGTTACATTTTTTCCACCTTGAAAATTGTACTTGAAGTTTGAAA
s panTro5.chr21               8723215 274 +  33445071 TGATTTAATGGATGTGAGCATAAACTTATTTCAGAG-TTTAT-TCATATTT---AAGT--GTCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCTATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-GTCTAATTCATCC-----A-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGTTACATTTTTTCCACCTTGAAAATTGTACTTGAAGTTTGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262432 273 +  46275980 TGATTTAATGGATGTGAGCATAAACTTATTTCAGAG-TTTAT-TCATATTT---AAGT--GTCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCTATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-GTCTAATTCATCC-----A--TTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGTTACATTTTTTCCACCTTGAAAATTGTACTTGAAGTTTGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8244891 274 -  13858734 TGATTCAATGGATGTGAGCATAAACTTATTTCAGAG-TTTAT-TCATATTT---AAGT--GTCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCTATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-GTCTAATTCATCC-----A-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGTTACATTTTTTCCACCTTGAAAATTGTACTTGAAGTTTGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270352 275 +  32716333 TGATTTAATGGATGTGAGCATAAACTTATTTCAGAG-TTTAT-TCATATTT---AAGT--GTCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCTATCATATTTTAACATATTTAAGAAAAATTTAAAAAGTT-GTCTAATTCATCC-----ATTTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGATACATTTTTTCCACCTTGAAAATTGTACTCGAAGTTTGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683133 273 - 185818997 TGATTTAATGGATGTGAGCGTAAACTTATTTCAGAG-TTTAT-TTATATTT---AACT--ATCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-G-CTAATTCATCC-----T-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGATCAGTTACATTTTTTCCACCTTGAAAATTGTACTCAAAGTTTGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167317774 273 - 192294377 TGATTTAATGGATGTGAGCGTAAACTTATTTCAGAG-TTTAT-TTATATTT---AACT--ATCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-G-CTAATTCATCC-----T-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGATCAGTTACATTTTTTCCACCTTGAAAATTGTACTCAAAGTTTGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941581 273 -  30496662 TGATTTAATGGATGTGAGCGTAAACTTATTTCAGAG-TTTAT-TTATATTT---AACT--ATCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-G-CTAATTCATCC-----T-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGATCAGTTACATTTTTTCCACCTTGAAAATTGTACTCAAAGTTTGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466261 274 +  21915920 TGATTTAATGGATGTGAGCGTAAACTTATTTCAGAG-TTTAT-TTATATTT---AACT--ATCTTC-CTTATAAAATACAATTAAGTTATGAAACGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-G-CTAATTCATCC----TT-TTTTTTTGAAATGTATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGAGCTAGTCATTACTGCTCAGTTACACTTTTTCCACCTTGAAAATTGTACTCAGAGTTTGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967373 277 -  90373283 TGATTTAATGGATATGAGCAT-AACTTATTTCAGAG-TTTAT-TTATATTT---AACT--ATCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-G-CTAATTCATCCATTTTT-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGTTACATTTTTTTCACGTTGAAAATTGTACTCAAAGTTTGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3471757 274 +   7543664 TGATTTAATGGATGTGAGCGTAAACTTATTTCAGAG-TTTAT-TTATATTT---AACT--ATCTTC-CTTATAAAATACAATGAAGTTATGAAAAGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTT-G-CTAATTCATCC----TT-TTTTTTTGAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGATCAGTTACATTTTTTCCACCTTGAAAATTGTACTCAAAGTTTGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242448 275 -  13750039 TGATTTAATGGATGTGAGCATAAACTTATTTCAGAG-TTTAT-TTATATTT---AATT--ACCTTC-CTTATAAAATACAATGAAGTTATAAAAAGTACAGGTCAATCATATTTTAAAATATTTAAGAAAAATTTAAAAAGTTGG-CTAATTCATCT----TT-TTTTTTTTAAATATATGTTTTAAAATCTCAAAATAAGCA----CCCATTTAACTAAGTAAATATGAGTGCTAGTCATTACTGGTCAGTTACATTTTTTCCACCTTGAAAATTGTACTCAAAGTTTGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26501867 273 +  50472720 TGACTTAATGGATGTGAGCATAAATTTATTTCGAAC-TTTAT-TTCTATTT---AAGT--GTCTTC-CCCATAAAACATAATGAGGTTATGAAAAATACAGCCCTCTCATATGTTAAAATATTTAAGAAAGATTTTAAAAGTT-GTCTAATTCATCT----AG-TTTTTTTGAAATATATGTTTTAAAATCCCAAAATAAGCA----CCGAGTTAACTAAGTAAATATGAGTGCTAGTCATTATTGATCAGTT--ATTTCTTCCACCTTGAAATTTTTTCTCAAAGTTTGAAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13920591 264 -  14377064 TGATGTAATGGATGTGAGCATGAATTTATTTCAGAC-TTTAT-TCATATTT---AAGT--GTCTTC-CCCAGAAAACATAATGAGGTTATGAAAAGTACAGCCTTATCATATTTTAAAACATTTAAGAAATATTTTAAAAGTT-GTCTAATTCATCT----AG-TTTTTTTGAAATATATGTTTTGGAATCTCAAAATAAGCA----CCGATCTAACTAAGTAAATATGA---------ATTATTGATCTGTT--ATTTCTTCCACCTTGAAAATTTTACTCAAAGTTTGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9152178 266 -   9889416 TGATTTAATGGATGTGAGCATAAATTTATTTCAGGC-TTTAT-TTATATTT---AAGT--GTCTTC-CCCATAAAACATAATCAGGTTATGAAAAGTACAGCCTTATCATATTTTAAAATATTTAAGAAGGATTTTAAAAGTT-GTCTAATTCATCT----AG-TTTTTTTGAAATATA--TTTTAAATTCTCAAAATAAGCA----CCGATTTAACT-----AATATGAGTGCTAGTCATTATTGATCAGTT--ATTTCTTCCACCTTGAAAATTTTACTCGAAGTTTGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18037303 260 +  39895921 TAATCTGATTGATGTAACCAGAAGTCTATTTCAGAGATATATATTATATTTCAGAGAT--GTCTTCTCTCATTAAACACAATGAGAGTCCTAAAATTATAACTCTATCATATTTTAAAATATTTGGGAGAAATCAAGAAAGTC-GTCTCATTCATAC-----T-------------------TAAAAAAATTCAGCATGAGTA----TGCCCCCAACTAACTAAAGATGAGTACTAATGATTAAGGATCAGTT--ATTTGCTCCACCTTGACAACTGAAACAGAGATTTGAAA
i canFam3.chr31             I 219 I 2964
s dasNov3.JH578070            2361916 264 +   3081153 TGATTTGACAAAGGTGAATATAAATCTATTTCAGAG-TTCCT-CTGTATTC---AGTTAAGTCTTT-CCCACACAATAAAATGAAATTTTAAAAACCATAGCTTTATTAT---TTTAAATATTTAGAAAATAGATGAA------GTCTCACTCATCT-------TTCCTTTGAAA-GTAATTTTTAAAAATTCAAAATGAGCATGCTCCCATTTAATTAACTAAATTTGAGTGCTGTTGATAAA-----GGTTCTTTTTTTTCCACCTGGGAAAA-GTGTGAGAGGTTGGAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=76112.000000
s hg38.chr21_GL383579v2_alt    105136 9 +    201197 ATAGACTAA
s panTro5.chr21               8723489 9 +  33445071 ATAGACTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262705 9 +  46275980 ATAGACTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245165 9 -  13858734 ATAGACTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270627 9 +  32716333 ATAGACTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683406 9 - 185818997 ATAGACTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318047 9 - 192294377 ATAGACTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941854 9 -  30496662 ATAGACTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466535 9 +  21915920 ATAGACTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967650 9 -  90373283 ATAGACTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472031 9 +   7543664 ATAGACTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242723 9 -  13750039 ATAGACTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26502140 9 +  50472720 ATAGACTAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13920855 9 -  14377064 ATAGACTAA
i cebCap1.NW_016107322v1    C 0 I 9409
s aotNan1.NW_018487195v1      9152444 9 -   9889416 ATAGACTAA
i aotNan1.NW_018487195v1    C 0 I 2814
s dasNov3.JH578070            2362180 9 +   3081153 ATATTTTCC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e canFam3.chr31              18037563 2964 +  39895921 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=95659.000000
s hg38.chr21_GL383579v2_alt    105145 15 +    201197 ATAACTGCAAAACTT
s panTro5.chr21               8723498 15 +  33445071 ATAACTGCAAAACTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262714 15 +  46275980 ATAACTGCAAAACTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245174 15 -  13858734 ATAACTGCAAAACTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270636 15 +  32716333 ATAACTCCAAAACTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683415 15 - 185818997 ATAACTGCAAAACTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318056 15 - 192294377 ATAACTGCAAAACTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941863 15 -  30496662 ATAACTGCAAAACTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466544 15 +  21915920 ATAACTGCAAAACTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967659 15 -  90373283 ATAACTGCAAAACTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472040 15 +   7543664 ATAACTGCAAAACTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242732 15 -  13750039 ATAACTGCAAAACTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26502149 15 +  50472720 GTCATTCTACAACTT
i calJac3.chr21             C 0 I 3096
s dasNov3.JH578070            2362189 14 +   3081153 ATTA-TACAACAATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18037563 2964 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=96646.000000
s hg38.chr21_GL383579v2_alt    105160 17 +    201197 TAAGTAAAATATATGCA
s panTro5.chr21               8723513 17 +  33445071 TAAGTAAAATATATGCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262729 17 +  46275980 TAAGTAAAATATATGCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245189 17 -  13858734 TAAGTAAAATATATGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270651 17 +  32716333 TAAGTAAAATATATGTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683430 17 - 185818997 TAAGTAAAATATATGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318071 17 - 192294377 TAAGTAAAATATATGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941878 17 -  30496662 TAAGTAAAATATATGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466559 17 +  21915920 TAAGTAAAATATATGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967674 17 -  90373283 TAAATAAAATATATGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472055 17 +   7543664 TAAGTAAAATATATGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242747 17 -  13750039 TAAGTAAAATATATGTG
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2362203 17 +   3081153 TATTTAAACTGCCTACA
i dasNov3.JH578070          C 0 I 998
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18037563 2964 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=235719.000000
s hg38.chr21_GL383579v2_alt    105177 46 +    201197 TATTTGCTACAAGTCTACCAAGTGAAATTAACAAATACAACTGCTT
s panTro5.chr21               8723530 46 +  33445071 TATTTGCTACAAGTCTACCAAGTGAACTTAACAAATACAACTGCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262746 46 +  46275980 TATTTGCTACAAGTCTACCAAGTGAACTTAACAAATACAACTGCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245206 46 -  13858734 TACTTGCTACAAGTCTACCAAGTGAAATTAACAAATACAACTGCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270668 46 +  32716333 TATTTGCTACAAATAGACCAAATGAAATTAACAATTACAACTGCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683447 46 - 185818997 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTACGACTTCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318088 46 - 192294377 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTACGACTTCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941895 46 -  30496662 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTACGACTTCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466576 46 +  21915920 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTACGACTTCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967691 46 -  90373283 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTACAACTGCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472072 46 +   7543664 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTAAGACTTCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242764 46 -  13750039 CATTCGCTACAAGTCTACCAATTGAAATTAACAATTACAACTGCTT
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e dasNov3.JH578070            2362220 998 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18037563 2964 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=806468.000000
s hg38.chr21_GL383579v2_alt    105223 141 +    201197 TTAAATAATCATCTACCATTTATAATGTCATATTTTCATTTATTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttctatcgatcagaagacaggcagagtgtagctgctt
s panTro5.chr21               8723576 141 +  33445071 TTAAATAATCATCTACCATTTAAAATGTCATATTTTCATTTATTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttctatcgatcagaagtcaggcagagtgtagctgctt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262792 141 +  46275980 TTAAATAATCATCTACCATTTAAAATGTCATATTTTCATTTATTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttctatcgatcagaagtcaggcagagtgtagctgctt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245252 141 -  13858734 TTAAATAATCATCTACCATTTAAAATGTCATATTTTCATTTATTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttctatcgatcagaagtcaggcagagtgtagctgctt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270714 141 +  32716333 TTAAGTAATCATTTACCATTTAATATGTCATATTTTCATTTATTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttctattgatcagaagtcaggcagagtgtagctgctt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683493 140 - 185818997 TTAAATAAA-ATCTACTATTTAAAATGTCATATTTTCATTTGTTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttttatagatcggaagtcaggcagcatgtaaccgctt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318134 140 - 192294377 TTAAATAAA-ATCTACTATTTAAAATGTCATATTTTCATTTGTTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttttatagatcggaagtcaggcagcatgtaaccgctt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4941941 140 -  30496662 TTAAATAAA-ATCTACTATTTAAAATGTCATATTTTCATTTGTTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttttatagatcggaagtcaggcagcatgtaaccgctt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466622 140 +  21915920 TTAAATAAA-ATCTACTATTTAAAATGTCATATTTTCATTTGTTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttttatagatcagaagtcaggcagcatgtaaccgctt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967737 140 -  90373283 TTAAATAAT-ATCTACCATTTAAAATGTCATATTTTCATTTGTTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatgtcacagtttttatagatcagaagtcaggcagcatgtaaccgctt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472118 140 +   7543664 TTAAATAAA-ATCTACTATTTAAAATGTCATATTTTCATTTGTTTAAATTCTAGGATTTATTTT-----TCTTGAGttataacaacacccccatttattatttcacagtttttatagatcagaagtcaggcatcatgtaaacgctt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242810 140 -  13750039 TTAAATAAT-ATCTACCATTTAAAATGTCATATTTTCACTTGTTTAAATTCTAAGATTTATTTT-----TCTTGAGttataacaacacccccatttattatgtcacagtttttatagatcagaagtcaggcagcatgtaaccgctt
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18040527 119 +  39895921 TTAAATAATCATTTACCATTTAAAGTGCTATATTTCTATCTATTTGCATTCTATGAATCAGTTTGAAAACTATGAAAGATATTAATACCCAAATTT------------TCTCTATGTCTT---------------TTTAGCTACTT
i canFam3.chr31             I 2964 I 187
e micMur3.chr31              23691109 3948 +  47401472 I
e dasNov3.JH578070            2362220 998 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=327139.000000
s hg38.chr21_GL383579v2_alt    105364 55 +    201197 ctctgttcagggtattacaaggctaaaaccaaggattaagccagattgcattctc
s panTro5.chr21               8723717 55 +  33445071 ctctgttcagggtattacaaggctaaaaccaaggattaagccagattgcattctc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262933 55 +  46275980 ctctgttcagggtattacaaggctaaaaccaaggattaagccagattgcattctc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245393 55 -  13858734 ctccgttcagggtgttacaaggctaaaaccaaggattaagccagattgcattctc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270855 55 +  32716333 ctctcttcagggtattacaaggctaaaaccaaggattaagccagattgcattctc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683633 55 - 185818997 ctctgttcagggtattacaaggctaaaaccacggattaagccagatcgcattctc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318274 55 - 192294377 ctctgttcagggtattacaaggctaaaaccacggattaagccagatcgcattctc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942081 55 -  30496662 ctctgttcagggtattacaaggctaaaaccacggattaagccagatcgcattctc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466762 55 +  21915920 ctctgttcagggtattacaaggctaaaaccacggattaagccagattgcattctc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967877 55 -  90373283 ctctgttcagggtattacaaggctaaaaccaaggattaagccggattgcattctc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472258 55 +   7543664 ctctgttcagggtattacaaggctaaaaccacggattaagccagattgcattctc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5242950 55 -  13750039 ctctgttcagggtattacaaggctaaaaccaaggattaagccagattgcattctc
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e dasNov3.JH578070            2362220 998 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18040646 187 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=483019.000000
s hg38.chr21_GL383579v2_alt    105419 134 +    201197 atctggagtataggagccatttttaaAGTTGAAAAT--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATGCTTTTTTAGTACCAAATATTTGATACACCTTACACCTTTAAGGCGTAAGGTGA---
s panTro5.chr21               8723772 133 +  33445071 atctggagtataggagccatttttaaAGTGGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATGCTTTTTTA-TATCAAATATTTGATACACCTTACACCTTTCAGGCGTAAGGTGA---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22262988 134 +  46275980 atctggagtataggagccatttttaaAGTGGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATGCTTTTTTAGTATCAAATATTTGATACACCTTACACCTTTCAGGCGTAAGGTGA---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245448 134 -  13858734 atctggagtataggagccatttttaaAGTGGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATGCTTTTTTAGTATCAAATATTTGATACACCTTACACCTTTCAGGCTTAAGGTGA---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9270910 134 +  32716333 atctggagtacaggagccttttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTTTTTTAGTATCAAATATTTGATACACCTTACACCTTTCAGGTGTAAGGCGA---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683688  84 - 185818997 atctggagtatagaagccatttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTT-----------------------------------------------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318329  84 - 192294377 atctggagtatagaagccatttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTT-----------------------------------------------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942136  84 -  30496662 atctggagtatagaagccatttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTT-----------------------------------------------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466817  84 +  21915920 atctggagtatagaagccatttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTT-----------------------------------------------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19967932  84 -  90373283 atctggagtatagaagccatttttaaAGTTGAAAAT--GTATGGATACCTAAATAATCTTTCTGTACTCCTTGTTATTTGATACTT-----------------------------------------------------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472313  84 +   7543664 atctggagtatagaagccatttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTT-----------------------------------------------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5243005  84 -  13750039 atctggagtacagaagccatttttaaAGTTGAAAAC--GTATTGATACCTAAATAATCTTTCTGTACTACTTGTTATTTGATACTT-----------------------------------------------------
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2363218  87 +   3081153 atttatattCTAGGAGTCATTTTAAAAACAGAAAAAAGATATTGATGTGCAAACAACCTTTCTCTACTAC--ACTTTTAGATACTT--------------------------------------------------AAT
i dasNov3.JH578070          I 998 C 0
e micMur3.chr31              23691109 3948 +  47401472 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18040646 187 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=177641.000000
s hg38.chr21_GL383579v2_alt    105553 28 +    201197 TATTTTAGTGACTTATCTAACCCTCCT-G
s panTro5.chr21               8723905 28 +  33445071 TATTTTAGTGACTTATCTAACCCTCCT-G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263122 28 +  46275980 TATTTTAGTGACTTATCTAACCCTCCT-G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245582 28 -  13858734 TATTTTAGTGACTTATCTAACCCTCCT-G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271044 28 +  32716333 TATTTTAGTGACTTATCTAACCCTCCT-G
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683772 29 - 185818997 TATTTTAGTGAGTTATCTAACCCTCCTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318413 29 - 192294377 TATTTTAGTGAGTTATCTAACCCTCCTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942220 29 -  30496662 TATTTTAGTGAGTTATCTAACCCTCCTAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466901 28 +  21915920 TATTTTAGTGAGTTATCTAACCCTCCT-G
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19968016 28 -  90373283 TATTTTAGTGAGTTATCTAACTCTCCT-G
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472397 28 +   7543664 TATTTTAGTGAGTTATCTAATCCTCCT-G
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5243089 28 -  13750039 TATTTTAGTGAGTTATCTAACCCTCCT-G
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23695057 28 +  47401472 TATTTTAGTGACTTATGTAATTCTCCT-T
i micMur3.chr31             I 3948 C 0
s dasNov3.JH578070            2363305 24 +   3081153 ---TTTAGTGAGTGAAATGATTCTCCT--
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18040646 187 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=116481.000000
s hg38.chr21_GL383579v2_alt    105581 20 +    201197 AAATTTATTCAACTTTTTTC
s panTro5.chr21               8723933 20 +  33445071 AAATTTATTCAACTTTTTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263150 20 +  46275980 AAATTTATTCAACTTTTTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245610 20 -  13858734 AAATTTATTCAAATTTTTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271072 20 +  32716333 AAATTTATTCAACTTTTTTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683801 18 - 185818997 AAATTTATTAAAC--TTTTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318442 18 - 192294377 AAATTTATTAAAC--TTTTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942249 18 -  30496662 AAATTTATTAAAC--TTTTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466929 18 +  21915920 AAATTTATTAAAC--TTTTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19968044 18 -  90373283 AAATTTATTAAAC--TTTTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472425 18 +   7543664 AAATTTATTAAAC--TTTTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5243117 18 -  13750039 AAATTTATTAAAC--TTTTC
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23695085 20 +  47401472 AAATTTAGTCAACATTTTTC
i micMur3.chr31             C 0 I 7768
s canFam3.chr31              18040833 18 +  39895921 AATTTTCTTTAGC--TTTTT
i canFam3.chr31             I 187 I 8
s dasNov3.JH578070            2363329 18 +   3081153 --ATTTCTTCAACATTTTTC
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=1021373.000000
s hg38.chr21_GL383579v2_alt    105601 160 +    201197 TCTATTCTGTGTCCTATAACTTTC-CATCACTTGATTTTTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTGACTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGGTATCTTATTTCTCACAATATATTTAATATTTGAAAA
s panTro5.chr21               8723953 160 +  33445071 TCTATTCTGTGTCCTATAACTTTC-CATCACTTGAGTTTTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTGACTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGGTATCTTATTTCTCACAATATGTTTAATATTTGAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263170 160 +  46275980 TCTATTCTGTGTCCTATAACTTTC-CATCACTTGAGTTTTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTGACTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGGTATCTTATTTCTCACAATATATTTAATATTTGAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245630 160 -  13858734 TCTATTCTGTGTCCTATAACTTTC-CATCACTTGATTTTTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTGACTGGAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGGGATCTTATTTCTCACAATATATTTAATATTTGAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271092 160 +  32716333 TCTGTTCTGTGTCCTATAACTTTC-CATCACTTGATTTTTCATCCTATTGCCAAATACTACGCTCAACTTAAAAAGTCTTGACTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGCTATCTCATTTCTCACAATATATTTAATATTTGAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683819 160 - 185818997 TCTATTCTGTGTCCTATAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTATACTCAACTTAAAAAGTCTTACCTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAACTATCTCATTTCTCACAATATATTTAATAGTTGAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318460 160 - 192294377 TCTATTCTGTGTCCTATAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTATACTCAACTTAAAAAGTCTTACCTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAACTATCTCATTTCTCACAATATATTTAATATTTGAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942267 160 -  30496662 TCTATTCTGTGTCCTATAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTATACTCAACTTAAAAAGTCTTACCTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAACTATCTCATTTCTCACAATATATTTAATATTTGAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13466947 160 +  21915920 TCTATTCTGTGTCCTATAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTACCTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAACTATCTCATTTCTCACAATATATTTAATATTTGAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19968062 160 -  90373283 TCTATTCTGTGTCCTATAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTAACTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGCTATCTCACTTCTCACAATATATTTAATATTTGAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472443 158 +   7543664 TCTATTCTGTGTCCTGTAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTACACTCAATTTAAAAAGTCTTACCTGCAAATGTTTC------TGTTTTTAATTTCTAGAATTATAATAACTATCTCATTTCTCACAATATATTTAATATTTGAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5243135 160 -  13750039 TCTATTCTGTGTCCTATAACTTTC-CATCACTTTATTTCTCATCCTATTGCCAAATACTACACTCAACTTAAAAAGTCTTAACTGCAAATGTTTC----TGTGTTTTTAATTTCTAGAATTATAATAGCTATCTCATTTCTCACAATATATTTAATATTTGAAAA
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18040859 141 +  39895921 TGTGTTCCATCTGCTG----TTTC-TATCACTCTATTTGACATCCTATTACTGAGACCTATATCCAATTAAAAATAGTTTAATTGCAGATGT-----------TATTCATTTTCTAGAAATAAGGT---TATCTCCTTTCTCACA-----TTTAATATTTAAACA
i canFam3.chr31             I 8 C 0
s dasNov3.JH578070            2363347 142 +   3081153 -----------TCCCATCTCTTCCATGTCACTCTATTTCCCATTCTATTACC-----CTACACTTTAC-----AAGTCTGACTTGTGTATATTTCCTAGTGGTTTTTTTTTTTTTAGGACTATAAT--TTATCTAGTTTCTCACAATATATTTAAAATTCAAAAA
i dasNov3.JH578070          C 0 I 2963
e micMur3.chr31              23695105 7768 +  47401472 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=797840.000000
s hg38.chr21_GL383579v2_alt    105761 142 +    201197 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATGATGAGAATCATTAAC--TTTGGGTTTTAATAATCCTCTAAGCACTATTTACACAAAAAATTCTTTTTT-AAA-
s panTro5.chr21               8724113 144 +  33445071 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGAATCATTAACTATTTGGGTTTTAATAATCCTCTAAGCACTATTTACACAAAAAATTCTTTTTA-AAA-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263330 144 +  46275980 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGAATCATTAACTATTTGGGTTTTAATAATCCTCTAAGCACTATTTACACAAAAAATTCTTTTTT-AAA-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245790 144 -  13858734 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGAATCATTAACTATTTGGGTTTTAATAATCCTCTAAGCACTATTTACACAAAAAATTCTTTTTT-AAA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271252 144 +  32716333 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATTGAAAGATGTTTATCATGAGAATCATTAAATATTTGGGTTTTAATAATCCTCTAAGCACTATTTACACAAAAAATTCTTTTTT-AAA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160683979 143 - 185818997 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATACTCCTCTAAGAACTGTTTACACAAAACATTCTTTTTT-AAA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167318620 143 - 192294377 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACGTTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATACTCCTCTAAGAACTGTTTACACAAAACGTTCTTTTTT-AAA-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942427 143 -  30496662 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATACTCCTCTAAGAACTGTTTACACAAAACATTCTTTTTT-AAA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13467107 144 +  21915920 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATACTCCTCTAAGAACTGTTTACACAAAACATTCTTTTTTAAAA-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19968222 143 -  90373283 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATAATCCTCTAAGAACTGTTTACACAAAACATTCTTTTTT-TAA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3472601 143 +   7543664 --AATGATTTTTGAGTTATAAAGTACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATACTCCTCTAAGAACTGTTTACACAAAACATTCTTTTTT-AAA-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5243295 142 -  13750039 --AATGATTTTTGAGTTATAAAGCACTTTTAAAACTTTGAAGTATTTGACATTTTAAAATAGAAAGATGTTTATCATGAGACTCA-TAACTATTTGATTTTTAATAATCCTCTAAGAAGTGTTTACACAAAACATACTTTTC--AAA-
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18041000 125 +  39895921 TTTAAGATATCTCTGTTATAAAGTA-TGTTATAGTTTTGAAGTATTTCaatattaaaaatagatttatggtaatttttaaa-----taatattttaaatttta------ttCCAAACA----------AAAATATTTTTCTTT-TAAA
i canFam3.chr31             C 0 I 8822
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=1992507.000000
s hg38.chr21_GL383579v2_alt    105903 351 +    201197 AAAAttcaacaggatttttgggaagaggtggtgtatggttacataaataagttatctagtggtgatttctgagattttggtgcacccatcacccgagaaatgcacactgtctccaattagtagtcttttatccctcacctccctcccaccctttcccccgaatccacaaagtccaatgtatcattcttatgcttttgcatcctcatagctcagctcccacttatgaatgagaatatacaatctttggttttccattcctgaattacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattattttattcctttttatagctgagtagtattcc
s panTro5.chr21               8724257 351 +  33445071 AAAAttcaacaggatttttgggaagaggtggtgtatggttacataaataagttatctagtggtgatttctgagattttggtgcacccatcacccgagaaatgcacactgtctccaattagtagtcctttatccctcacctccctcccaccctttcccccgaatccacaaagtccaatgtatcattcttatgcttttgcatcctcatagctcagctcccacttatgaatgagaatatacaatctttggttttccattcctgaattacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattattttattactttttgtagctgagtagtattcc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263474 351 +  46275980 AAAAttcaacaggatttttgggaagaggtggtgtatggttacataaataagttatctagtggtgatttctgagattttggtgcacccatcacccgagaaatgcacactgtctccaattagtagtcctttatccctcacctccctcccaccctttcccccgaatccacaaagtccaatgtatcattcttatgcttttgcatcctcatagctcagctcccacttatgaatgagaatatacaatctttggttttccattcctgaattacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattattttattcctttttgtagctgagtattattcc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8245934 351 -  13858734 AAAAttcaacaggatttttgggaagaggtggtgtatggttacataaataagttatctagtggtgatttctgagattttggtgcacccatcacacgagaaatgcacactgtctccaattagtagtgttttatccctcacctccctcccaccctttcccccgaatccacaaagtccaatgtatcattcttatgcctttgcatcctcatagctcagctcccacttatgaatgagaatatacaatctttggttttccattcctgaattacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattattttattcctttttatagctgagtagtattcc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271396 351 +  32716333 AAAAttcaacaggatttttgggaagaggtggtgtatggttacataaataagttaactagtggtgatttctgagattttggtgcacccatcacccgagaaatgcacactgtctccgattagtagtcttttatcccttaccgccctcccaccctttcccccgaatccacaaagtccactgtatcattcttatgcctttgcatcctcatagctcagctcccacttatgaatgagaatatacaatcttcggttttccattcctgaattacttcacttagaataatggtctccaattccagccagattgctgtgaacgccattattttgttcctttttatagctgagtagtattcc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160684122 351 - 185818997 AAAAttcagcgggttttttggaaagaggtggtgtatggttacataaataagttttctagtggtgatttctgagattttggtgcacccatcacccaagcaatgtacactgtctccaattagcagtgttttatccctcacttccctccctctcttttcccagggtccacaaagtccactgtatcattcgtatgcctttgcatcctcaaagctcagctcccacttgtgagtgagaatatacgatctttggtattccattcctgagttacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattatttcattactttttgtagctgagtagtattcc
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167318763 351 - 192294377 AAAAttcagcgggttttttggaaagaggtggtgtatggttacataaataagttttctagtggtgatttctgagattttggtgcacccatcacccaagcaatgtacactgtctccaattagcagtgttttatccctcacttccctccctctcttttcccagagtccacaaagtccactgtatcattcgtatgcctttgcatcctcaaagctcagctcccacttgtgagtgagaatatacgatctttggtattccattcctgagttacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattatttcattactttttgtagctgagtagtattcc
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4942570 351 -  30496662 AAAAttcagcgggttttttggaaagaggtggtgtatggttacataaataagttttctagcggtgatttctgagattttggtgcacccatcacccaagcaatgtacactgtctccaattagcagtgttttatccctcacttccctccctctcttttcccagagtccacaaaatccactgtatcattcgtatgcctttgcatcctcaaagctcagctcccacttgtgagtgagaatatatgatctttggtattccattcctgagttacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattatttcattcctttttgtagctgagtagtattcc
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13467251 351 +  21915920 AAAAttcagcgggttttttggaaagaggtggtgtatggttacataaataagttttctagtggttatttctgagattttggtgcacccatcacccaagcaatgtacactgtctccaattagcagtgttttatccctcacttccctccctctcttttcccagagtccacaaagtccactgtatcattcgtatgcctttgcatcctcaaagctcagctcccacttgtgagtgagaatatacgatctttggtattccattcctgagttacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattatttcattcctttttgtagctgagtagtattcc
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19968365 351 -  90373283 AAAAttcaacggattttttgggaagaggtggtgtatggttacataaataagttctctagtggtgatttctgagagtttggtgcacccatcacccgagcaatgtacactgtctccaattagtagtgttttatccctcacttccctccctccctttcccccgagtccacaaagtccactgtatcattcgtatgcctttgcatcctcaaagctcagctcccacctgtgagtgagaatatacgatctttggttttccattcctgagttacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattatttcattcctttttgtagctgagtagtattcc
i chlSab2.chr2              C 0 I 32
s manLeu1.NW_012103476v1      3472744 351 +   7543664 AAAAttcagcgggttttttggaaagaggtagtgtatggttacataaataagttttctagtggtgatttctgagattttggtgcacccatcacccaagcaatgtacactgtctccaattagcagtgttttatccctcacttccctccctctcttttcccagagtccacaaagtccactgtatcattcgtatgcctttgcatcctcaaagctcagctcccacttgtgagtgagaatatacgatctttggtattccattcttgagttacttcacttagaataatggtctccaattccagccagattgctgtgaatgccattatttcattcctttttgcagctgagtggtattcc
i manLeu1.NW_012103476v1    C 0 I 1
s colAng1.NW_012120598v1      5243437 351 -  13750039 AAAAGtcaatgggttttttgggaagaggtggtgtatggttacataaataagttctctagtggtgatttctgagattttggtgcacccatcacccaagtaatgtacactgtctccaattagtagtgttttatccctcacttccctccctccctttcccccgagtccacaaagtccactatatcattcgtatgcctttgcatcctcaaagctcagctcccacttgtgagtgagaatatacgatctttggttttccattcctgagatacttcacttagaataatgatctccaattccagccagattgctgtgaatgccattatttcattcctttttgtagctgagtagtattcc
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I

a score=8120.000000
s hg38.chr21_GL383579v2_alt    106254 16 +    201197 gttatatataaatata
s panTro5.chr21               8724608 16 +  33445071 attatatataaatata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263825 16 +  46275980 attatatataaatata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8246285 16 -  13858734 attatatataaataTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271747 16 +  32716333 attatatatataatta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160684474  9 - 185818997 ttttta-------ata
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167319115  6 - 192294377 ttttta----------
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4942922 10 -  30496662 ttttaa------tata
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13467603 11 +  21915920 tttttt-----atata
i cerAty1.NW_012002954v1    I 1 C 0
s manLeu1.NW_012103476v1      3473096 11 +   7543664 tttttt-----atata
i manLeu1.NW_012103476v1    I 1 C 0
s colAng1.NW_012120598v1      5243788 16 -  13750039 tttatatgtaaatata
i colAng1.NW_012120598v1    C 0 I 102
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e chlSab2.chr2               19968716 32 -  90373283 I

a score=53588.000000
s hg38.chr21_GL383579v2_alt    106270 28 +    201197 attatatataaatataatataaa--------tatat
s panTro5.chr21               8724624 18 +  33445071 attatatataaat------------------tatat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263841 18 +  46275980 attatatataaat------------------tatat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8246301 13 -  13858734 -----atataaat------------------tatac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271763 34 +  32716333 --tatatataaatataacataaattataaattatat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160684483 28 - 185818997 tatatatataaatatgatataaa--------tatat
i rheMac8.chr3              C 0 I 12
s macFas5.chr3              167319121 27 - 192294377 -atatatatatatatgatataaa--------tatat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942932 28 -  30496662 tatatatataaatatgatataaa--------tatat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13467614 28 +  21915920 tatatatataaatatgatataaa--------tatat
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3473107 28 +   7543664 tatatatataaatatgatataaa--------tatat
i manLeu1.NW_012103476v1    C 0 M 273
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e chlSab2.chr2               19968716 32 -  90373283 I

a score=5096.000000
s hg38.chr21_GL383579v2_alt    106298 2 +    201197 at
s panTro5.chr21               8724642 2 +  33445071 at
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263859 2 +  46275980 at
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8246314 2 -  13858734 at
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271797 2 +  32716333 at
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160684523 2 - 185818997 at
i rheMac8.chr3              I 12 C 0
s macNem1.NW_012015021v1      4942960 2 -  30496662 at
i macNem1.NW_012015021v1    C 0 I 3
s cerAty1.NW_012002954v1     13467642 2 +  21915920 at
i cerAty1.NW_012002954v1    C 0 I 4
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e macFas5.chr3              167319148 0 - 192294377 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e chlSab2.chr2               19968716 32 -  90373283 I

a score=119150.000000
s hg38.chr21_GL383579v2_alt    106300 320 +    201197 tataatatgtaaaatatatatttacattatatatataattatatataatataaaaataaattatatacatttatatataaatatatacttatatatacttatatgttatatataatt--atatatgttatatataagtgtata--------tagtatatacacatatatatttttatatatgtata-------agta------tatatatacttacactatatatacttatactatatata-agtatatacttatatatatacgtatatatacataagtatatat--gtata---tatataagcttatatataattatatatacttata-tatatttata---------------------------------------------------ttatatataa
s panTro5.chr21               8724644 258 +  33445071 tataatatgttaaatatatatttacat--tatatataattat-----atataaaaataaattatatacatttatatataaatatatacttatatatacttatatgttatatataat------tatgttatatataagtgtata--------tagtatatacacatgtatatttttatatatgtata-------agta------tatataca-----------------------------------------tgtatatataagtatatatacataagtatatat--gtata---tatataagcttatatataattatatatacttata-tatatttat--------------------------------------------------------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22263861 239 +  46275980 tataatatgttaaatatatatttacat--tatatataattat-----atataaaaataaattatatacatttatatataaatatatacttatatatacttatatgttatatataatt--atatatgttatatataagtgtata--------tagtatatacacatatata-ttttatatatgtata-------agta------tatataca---------------------------------------------------------------taagtatatat--gtata---tatataagcttatatataattatatatacttata-tatatttat--------------------------------------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8246316 358 -  13858734 tataatatgttaaatatatatttacat--tatatataattatatataatataaaaataaattatatacatttatgtataa----------atatatacttatatgttatatataat----taaatgttatatataagtgtata--------cggtatatacacatatata-ttttatatatgtata-------agta------tatatatacttataccatatatacttatactatgtatg-tgtatatatacttatatataagtatatatacataagtatatataagtata---tatataagcttatatataattatatatacttata-tatatttatattTTTATAGCTGAGTAGTATTTATATATAAATTTTTATAGCTGAGTAGTATTTATATATAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9271799 310 +  32716333 aataatatattaaatatatatt---at--tatatatgattatatataatataaaaagaaattata----------tataaatatataataatatatatttatatttt---tatagctgagtagtatttatatataaatttttatagctgagtagtatttatatataaatatatttgtatttttatagctgagtagtattccattatacata----------ttatatatataacatatatataatatattccattatatacatttatatatatataa-tatGGAATACTACACAGTATAAAAATTTATTtatatatgtataaaattccattttatataa--------------------------------------------------------------
i nomLeu3.chr25             C 0 I 2206
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cerAty1.NW_012002954v1     13467644   4 +  21915920 I
e macNem1.NW_012015021v1      4942962   3 -  30496662 I
e macFas5.chr3              167319148   0 - 192294377 C
e rheMac8.chr3              160684525   0 - 185818997 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e chlSab2.chr2               19968716  32 -  90373283 I

a score=65139.000000
s hg38.chr21_GL383579v2_alt    106620 166 +    201197 atttttatagctgagtagtatttatatatatagatatttatatttttatagcttagtagtattccattatatatattatatattatatatat--cattatatataatatatatga--------------------------------------aatatatattccattatatata----------------------atatataatatatattccatcatatataata-------------
s panTro5.chr21               8724902 181 +  33445071 atttttatagctgagtagtatt--tatatatagatatttatatttttatagctgagtagtattccattatatatattatatataatatatat--aa-aatatatattatatat----------------------------------------aatatatattccattatatataatat-ata-taaaatatatattatatataatatatattccattatatataata-------------
i panTro5.chr21             C 0 I 157
s panPan2.chr21              22264100 168 +  46275980 atttttatagctgagtagtatttatatatatagatagttatatttttatagctgagtagtattccattatatatattatatataatatatattccattatatataatatatataa--------------------------------------aatatatatttcattatatata----------------------atatataatatatattccattatatataata-------------
i panPan2.chr21             C 0 I 47
s gorGor5.CYUI01015003v1      8246674 239 -  13858734 ATTTTTATAGCTGAGTAGTATTTATATATAAAGATATTTATAtttttatagctgagtagtattccattatatatattatatattatacattc--cattatatattatatatataatatatatttatatatataatatatattcattatattataatatatattccattatatataatataatattccattatatattatatataatatatattccattatatataatataatattccatta
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cerAty1.NW_012002954v1     13467644   4 +  21915920 I
e macNem1.NW_012015021v1      4942962   3 -  30496662 I
e macFas5.chr3              167319148   0 - 192294377 C
e rheMac8.chr3              160684525   0 - 185818997 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e chlSab2.chr2               19968716  32 -  90373283 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=78979.000000
s hg38.chr21_GL383579v2_alt    106786 174 +    201197 tatataatatatattccatcatatattatatataatatatt---------------------------------------------------------ccattgtgtattatatataatagatataccattatataatatataatatattttccattatctattatatataatatatattccattatatatattatatatataATGGAATACTACTCAGTATAAAAATTTT
s panTro5.chr21               8725240 176 +  33445071 tatataatatatattccattatatattatatataatatatt-------------------------------------------------------ttccattatatattatatataatatattttccattatataatatataatatattttccattatctattatatataatatatattccattatatatattatatatataATGGAATACTACTCAGTATAAAAATTTT
i panTro5.chr21             I 157 C 0
s panPan2.chr21              22264315 230 +  46275980 tatataatatatattccattgtatattatatataatatattccattgtatattatatataatatacattccattatatattatatataatat-atattccattatatattacatataatatattttccattatataatatataatatattttccattatctattatatataatatatattccattatatatattatatatataATGGAATACTACTCAGTATAAAAATTTT
i panPan2.chr21             I 47 C 0
s gorGor5.CYUI01015003v1      8246913 193 -  13858734 tatataatatatattccattatatattatatataatatata---------------------------------ttccattatatataatataatattccattatatataatatataatatatattccatt-----atatataatatattttccattatctattatatataatatattttccattatatatattatatatataatGGAATACTACTCAGTATAAAAATTGT
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cerAty1.NW_012002954v1     13467644   4 +  21915920 I
e macNem1.NW_012015021v1      4942962   3 -  30496662 I
e macFas5.chr3              167319148   0 - 192294377 C
e rheMac8.chr3              160684525   0 - 185818997 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e chlSab2.chr2               19968716  32 -  90373283 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=2784.000000
s hg38.chr21_GL383579v2_alt    106960 4 +    201197 ATTt
s panTro5.chr21               8725416 4 +  33445071 ATTt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22264545 4 +  46275980 ATTt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8247106 4 -  13858734 ATTt
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167319148 4 - 192294377 atat
i macFas5.chr3              C 0 I 1
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cerAty1.NW_012002954v1     13467644 4 +  21915920 I
e macNem1.NW_012015021v1      4942962 3 -  30496662 I
e rheMac8.chr3              160684525 0 - 185818997 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e chlSab2.chr2               19968716 32 -  90373283 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=125.000000
s hg38.chr21_GL383579v2_alt    106964 2 +    201197 at
s panTro5.chr21               8725420 2 +  33445071 at
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22264549 2 +  46275980 at
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8247110 2 -  13858734 at
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167319153 1 - 192294377 a-
i macFas5.chr3              I 1 C 0
s chlSab2.chr2               19968748 2 -  90373283 at
i chlSab2.chr2              I 32 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cerAty1.NW_012002954v1     13467644 4 +  21915920 I
e macNem1.NW_012015021v1      4942962 3 -  30496662 I
e rheMac8.chr3              160684525 0 - 185818997 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e colAng1.NW_012120598v1      5243804 102 -  13750039 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=22356.000000
s hg38.chr21_GL383579v2_alt    106966 8 +    201197 atatataa
s panTro5.chr21               8725422 8 +  33445071 atatataa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22264551 8 +  46275980 atatataa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8247112 8 -  13858734 atatatat
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167319154 8 - 192294377 atatatat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942965 8 -  30496662 atatatat
i macNem1.NW_012015021v1    I 3 C 0
s cerAty1.NW_012002954v1     13467648 8 +  21915920 atatatat
i cerAty1.NW_012002954v1    I 4 C 0
s chlSab2.chr2               19968750 8 -  90373283 atatatat
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5243906 8 -  13750039 atatatat
i colAng1.NW_012120598v1    I 102 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e rheMac8.chr3              160684525 0 - 185818997 C
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617 0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=1316144.000000
s hg38.chr21_GL383579v2_alt    106974 405 +    201197 aattccattttatataacacttgttgattgatgggcatttggcttacttccatacttttgcaattatgaattgtgctgctataa--atgtgtgtgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggtacccaggaggaggattg-ctgaatcaaatggtagttctacttttagttctttaagaaatctacaca--gtttttcatagcgtttgtactactttaca---ttcccaccagcagtgtaaaactgctcccttttcgccacatccccaccaacatctattattt----------ttaatttttttta-att-----atggccattctttcaggcataaggtgatattgcactggttggg----------ttttt---ttcctttttctttttctttctttttttttttttaagacggagtatcgct
s panTro5.chr21               8725430 390 +  33445071 aattccattttatataacacttgttgattgatgggcatttggcttacttccatacttttgcaattatgaattgtgctgctataa--atgtgtgtgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggtacccaggagggggattg-ctgaatcaaatggtagttctacttttagttctttaagaaatctacaca--gtttttcatagtgtttgtactactttaca---ttcccaccagcagtgtaaaactgctcccttttcgccacatccccaccaacatctattattt----------ttaatttttttaa-att-----atggccattctttcaggcataaggtgatattgcactg-ttggg----------ttttt---tttctttttgttttt--------------ttttaagacggagtatcgct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22264559 384 +  46275980 aattccattttatataacacttgttgattgatgggcatttggcttacttccatacttttgcaattatgaattgtgctgctataa--atgtgtgtgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggtacccaggagggggattg-ctgaatcaaatggtagttctacttttagttctttaagaaatctacaca--gtttttcatagtgtttgtactactttaca---ttcccaccagcagtgtaaaactgctcccttttcgccacatccccaccaacatctattattt----------ttaatttttttaa-att-----atggccattctttcaggcataaggtgatattgcactg-ttggg----------ttttt---ttctttttt--------------------ttttaagacggcgtatcgct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8247120 406 -  13858734 aattccattttatataacacttgttgattgatgggcatttggcttacttccatacttttgcaattatgaattgtgctgctgtaa--gtgtgtgtgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggtacccaggagggggattg-ctgaatcaaatggtagttctacttttagttctttaagaaatctacacactgtttttcatagtgtttgtactactttaca---ttcccaccagcagtgtaaaactgctccc-tttcaccacatccccaccaacatctattattt----------ttaattatttttt-att-----atggccattcttttaggcataaggtgatattgcactg-ttgggt---------ttttt---tttctttttctttttctctttttttttttttttaagacggagtatctct
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160684525 407 - 185818997 atttccatcttatgtaacacttgttgattaatgggcatttggcttacttctatacttgtacaattatgaattgtgctgctataaacatgtgtgtgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggtacccaggagagggattg-ctgaatcaaatggtagttctgtttttcgttcttaaagaaatctacacactgttttccatagtgtttgtactactttaca---ttcccacaggcagtgtaaaagtgctcccttttcaccacatccccaccaacatctactatttaaaaaaaaaaaaaaatttttttt-att-----atggtcattctttcaggagtaaggtaatattgcattg-ttgg-----------tttct---tttcttttcttttcttttt----------ttttgagacggagtcttgct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167319162 405 - 192294377 atttccatcttatgtaacacttgttgattaatgggcatttggcttacttctatacttttacaattatgaattgtgctgctataaacatgtgtgtgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggtacccaggagagggattg-ctgaatcaaatggtagttctgtttttcgttcttaaagaaatctacacactgttttccatagtgtttgtacgactttaca---ttcccacaggcagtgtaaaagtgctcccttttcaccacatccccaccaacatctactattt---aaaaaaaaaattttttttttaatt-----atggtcattctttcaggagtaaggtaatattgcattg-ttgg-----------tttct---tttcttttctttttttttt----------ttttgagacggagtcttgct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4942973 414 -  30496662 atttccatcttatataacacttg-tgattaatgggcatttggcttacttctatacttttacaattatgaattgtgctgctataaacatgtgtgtgaacagtatctttttttgtataatgacttcttttcctgt-ggtaggtacccaggagaggcattgcctgaatcaaatggtagttctgtttttcgttcttaaagaaatctacacactgttttccatagtgtttgtactactttaca---ttcccacaggcagtgtaaaagtgctcccttttcaccacatccccaccaacatctactatttaaaaaaaaaaaaaattttgtttttatt-----atggtcattctttcaggagtaaggtaatattgcattg-ttggtttct------tttct---tttcttttcttttcttttt----------ttttgagacggagtcttgct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13467656 408 +  21915920 atttccatcttatataacacttgttgattaatgggcatttggcttacttctatacttttacaattatgaattgtgctgctataaacatgtgtgtgca-agtatctttttttgtataatgacttcttttcctgtgggtaggtacccaggagagggattg-ctgaatcaaatggtagttctgtttttcgttcttaaagaaatctacacactgttttccatagtgtttgtactactttaca---ttcccacaggcagtgtaaaagtgatcccttttcaccacatccccaccaacagctactactt---aaaaaaaaaaaatttttttt-att-----atggtcattctttcaggagtaaggtaatattgcattg-ttgg-----------tttttacattttttttttttttttttt----------ttttgagacggagtcttgct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19968758 414 -  90373283 atttccattttatataacacttgttgattaatggtcatttggcttacttctatacttttacaattatgaattttgctgctataaacatgtatgtgca-agtatc-tttttcgtacaataacttcttttcttgtgggtaggtacccaggagagggattg-ctgaatcaaatggtagttctgtttttcattctttaagaaatctacacactgttttccatagtgtttgtactactttacattcttcccacaggcagtgtaaaagtgctcccttttcaccacat---cgccaacatctagtgttt----------aaattttttttttttttttttaattgtcattctttcaggagtaaggtaatattgcattg-ctggtttCTTTTTCCttttt---ttttttctttctttttttt----------ttttgagacggagtctcgct
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5243914 404 -  13750039 atttccattttatataacacttgttggttaatgggcatttggcttacttctatacttttacaattatgaattgtgctgctataaacatgcttctgca-agtatc-ttttttgtataatgacttcttttcctgtgggtaggcacccaggagagggattg-ctgaatcaaatggtagttccgtttttcgttctttaagaaatctacacactgttttccatagtgtttgtactactttaca---ttcctacaggtagtataaaagtactcccttttcaccacatccccaccaatatctactattt-----aaacaaaatttttttttt---------atggtcattctttcgggagtaaagtgatattgcattg-ttggtttct------ctttt---tcttttcttttctttttct----------ttttgagacggagtctcgct
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e manLeu1.NW_012103476v1      3473135 273 +   7543664 M
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=7094455.000000
s hg38.chr21_GL383579v2_alt    107379 1543 +    201197  
s panTro5.chr21               8725820 1546 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22264943 1544 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8247526 1546 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160684932 1550 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167319567 1551 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4943387 1550 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13468064 1555 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19969172 1531 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3473408 1550 +   7543664  
i manLeu1.NW_012103476v1    M 273 C 0
s colAng1.NW_012120598v1      5244318 1549 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e calJac3.chr21              26502164 3096 +  50472720 I
e saiBol1.JH378168            8689617    0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=126474.000000
s hg38.chr21_GL383579v2_alt    108922 27 +    201197 aattttactgttttatatacttaagca
s panTro5.chr21               8727366 27 +  33445071 aattttactgttttatatacttaagca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266487 27 +  46275980 aattttactgttttatatacttaagca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249072 27 -  13858734 aattttactgttttatatacttaagca
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686482 27 - 185818997 aattttacccttttatatacgcaagca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321118 27 - 192294377 aattttacccttttatatacgcaagca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4944937 27 -  30496662 aattttacccttttatatacgcaagca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13469619 27 +  21915920 aattttacccttttatatacgcaagca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19970703 27 -  90373283 aattttacccttttatatacgcaagca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3474958 27 +   7543664 aattttacccttttatatacgcaagca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5245867 27 -  13750039 aattttacccttttatatacgcaagca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505260 26 +  50472720 aaccttac-attatataaacccaagtg
i calJac3.chr21             I 3096 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e cebCap1.NW_016107322v1     13920864 9409 -  14377064 I
e canFam3.chr31              18041125 8822 +  39895921 I
e aotNan1.NW_018487195v1      9152453 2814 -   9889416 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=891996.000000
s hg38.chr21_GL383579v2_alt    108949 120 +    201197 gataggccccattacgtacattttctcaagataagcagtaactagttctcaagtaagaggacttaatggcatcttttattacacatcctaaatttatatggaaattggggtaaccatcta
s panTro5.chr21               8727393 120 +  33445071 gataggccccattacgtacattttctcaagataagcagtaactagttctcaagtaagaggacttaatggcatcttttattacacatcctaaatttatatggaaattggggtaaccatcta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266514 120 +  46275980 gataggccccattacgtacattttctcaagataagcagtaactagttctcaagtaagaggacttaatggcatcttttattacacatcctaaatttatatggaaattggggtaaccatcta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249099 120 -  13858734 gatagaccccattacgtacattttctcaagataagcagtaactagttctcaagtaagaggacttaatggcatcttttattacacatcctaaatttatatggaaattggggtaaccatcta
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686509 119 - 185818997 gataggccccattacatacattttctcaagagaagcagtaactagtcctcaagtaagaggacttaatggcatcttatattacacattctaaatttatatagaaattggggtga-catcta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321145 119 - 192294377 gataggccccattacatacattttctcaagagaagcagtaactagtcctcaagtaagaggacttaatggcatcttatattacacattctaaatttatatagaaattggggtga-catcta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4944964 119 -  30496662 gataggccccattacatacattttctcaagagaagcagtaactagtcctcaagtaagaggacttaatggcatcttatattacacattctaaatttatatagaaattggggtga-catcta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13469646 119 +  21915920 gataggccccattacatacattttctcaagagaagcagtaactagtcctcaagtaagaggacttaatggcatcttatattacacattctaaatttatatagaaattggggtga-catcta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19970730 119 -  90373283 gataggccccattacatacattttctcaagagaagcagtaactagtcctcaagtaagaggacttaatggcatcttttattacacattctaaatttatatagaaattggggtaa-catcta
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3474985 119 +   7543664 gataggccccattacatacattttctcaagacaagcagtaactagtcctcaagtaagaggacttaatggcatcttatattacacattctaaatttatatagaaattggggtga-catcta
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5245894 119 -  13750039 gataggccccattacatacattttcttaagagaagcagtaactagtcctcaagtaagaggacgtaatggcatcttttattacacattctaaatttatacagaaataggggtaa-catcta
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505286 120 +  50472720 gatagaccccatgacatacattttctcaagataagcagtaactagtcctcaaataagctgactaattagcatcttttattagacattctaaatttatatggaaattggggtaaccgtcta
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13930273 120 -  14377064 gatagaccccattacatacattttctcaagataagcagtaactagtcctcaaataagatgactaactagcatcttttattagacattctaaatttatatggaaattgggataaccatcta
i cebCap1.NW_016107322v1    I 9409 C 0
s aotNan1.NW_018487195v1      9155267 120 -   9889416 gatagaccccattacatacattttctcaagataagcagtaactagtcctcaaataagatgactaactagcatcttttattagacattctaaatttatatggaaattggggtaaccatcta
i aotNan1.NW_018487195v1    I 2814 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e canFam3.chr31              18041125 8822 +  39895921 I
e saiBol1.JH378168            8689617   0 +  13128814 C
e otoGar3.GL873528           24864268 6893 -  38779656 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=607829.000000
s hg38.chr21_GL383579v2_alt    109069 77 +    201197 tgttagcacaattgagcaacc--agttaacaataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
s panTro5.chr21               8727513 77 +  33445071 tgttagcacaattgagcaacc--agttaacaataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266634 77 +  46275980 tgttagcacaattgagcaacc--agttaacaataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249219 73 -  13858734 tgttagcacaattgagcaacc--agtt----ataatttattgcatatttcataatatctaagaga---ggatttgagatgtt
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686628 79 - 185818997 tgttagcaccattgagcaaccatagttaataataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321264 79 - 192294377 tgttagcaccattgagcaaccatagttaataataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945083 79 -  30496662 tgttagcaccattgagcaaccatagttaataataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13469765 79 +  21915920 tgttagcaccattgagcaaccatagttaataataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19970849 79 -  90373283 tgttagcaccattgagcaaccatagttaacaataatttattgtatattttataatatctaagaga---ggatttgagatgtt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475104 79 +   7543664 tgttagcaccattgagcaaccatagttaataataatttgttgtatatttcataatatctaagaga---ggatttaagatgtt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246013 79 -  13750039 tgttagccccattgagcaaccatagttaacaataatttattgtatatttcataatatctaagaga---ggatttgagatgtt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505406 79 +  50472720 tgttagcACCATCgagcaatcacagctaacaataatttattgtatatttcataacttctaaggga---ggatttgggatgtt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13930393 79 -  14377064 tgttagcacaattgagcaatcatggctaacaataatttattgtatatttcataacttctaagaga---ggatttgggatgtt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155387 79 -   9889416 tgttagcacaatcgagcaatcacagctaacaataatttattgtatatttcataacttctaagaga---ggatttgggatgtt
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24871161 78 -  38779656 tggtagctcaatagagcaacc--atttaccaa-aaggtattgtgtatttcaaaataact-agatacatggaattagaatgtt
i otoGar3.GL873528          I 6893 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e canFam3.chr31              18041125 8822 +  39895921 I
e saiBol1.JH378168            8689617  0 +  13128814 C
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=1132788.000000
s hg38.chr21_GL383579v2_alt    109146 126 +    201197 tccccccaaaaagataaatatttaaagtgacagatatcccaattaccctgatttgatcattacactttttatacttccaccaaaatatcatatgtattttataaatatatacaactattatgtatc
s panTro5.chr21               8727590 126 +  33445071 tccccccaaaaagataaatatttaaagtgacagatatcccaattacgctgatttgatcattacactttttatacttccaccaaaatatcatatgcattttataaatatatacaactattatgtatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266711 126 +  46275980 tccccccaaaaagataaatatttaaagtgacagatatcccaattacactgatttgatcattacactttttatacttccaccaaaatatcatatgcattttataaatatatacaactattatgtatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249292 126 -  13858734 tccccccaaaaagataaatatttaaagtgacagatatcccaattaccctgatttgatcattacactttttatgcttctaccaaaatatcatatgcattttataaatatatacaactattatgtatc
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686707 126 - 185818997 tcccccaaaaaagataaatgtttacagtgacagatatcccaattaccctgatttgatcattacacattttatacttctaccaaaatatagtataaattttataaatatatacaactattatgtatc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321343 126 - 192294377 tcccccaaaaaagataaatgtttacagtgacagatatcccaattaccctgatttgatcattacacattttatacttctaccaaaatatagtatatattttataaatatatacaactattatgtatc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945162 126 -  30496662 tcccccaaaaaagataaatgtttacagtgacagatatcccaattaccctgatttgatcattacacattttatacttctaccaaaatatagtatatattttataaatatatacaactattatgtatc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13469844 126 +  21915920 tcccccaaaaaagataaatgtttacagtgacagatatcccaattaccctgatttgatcattacacattttatacttctaccaaaatatagtatatattttataaatatatacaactattatgtatc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19970928 126 -  90373283 tcccccaaaaaagataaatgtttacagtgacagttatcccaattaccctgatttgatcattacacattttatacttctaccaaaatatagtatatattttataaatatatacaactattatgtatc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475183 126 +   7543664 tcccccaaaaaagataaatgtttacagtgacagatatcccaattaccctgatttgatcattacacattttatacttctaccaaaatatagtatatattttataaatatatacaactattatgtatc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246092 126 -  13750039 tcccccaaaaaagataaatgtttacagtgacagatatcccaattaccctgatttgatcattacacattttatacttcttccaaaatatcatatatattttataagtatatacaaccattatgtatc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505485 125 +  50472720 -ttcccagaaaagctaaatgtttaaaatgatagatatcccagtgaccctgatttgatcattatacattttatgcttctaccaaaatatcatttgaactttataaatatacacaaatcttatgtatc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689617 126 +  13128814 tcccccaggaaagataaatgtttaaaatgatagatatcccagttaccctgatttgatcattacatattttatgctgctaccaaaatatcatatgaactttataaatatatacaaatcttatgtatc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13930472 126 -  14377064 tcccccagacaagataaatgtttaaaatgatagatatcccaattaccctgatttgatcattatacattttatgcttcttccaaaatatcatatgaactttataaatatatacaaatcttatgtagc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155466 126 -   9889416 tcccccagaaaagataaatgtttaaaatgatagatatcccagttaccctgatttgatcattacacattttatgcttctaccaaaatatcatatgaactttataaatatatacaaatcttacgtatc
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24871239 123 -  38779656 cctaacatagaggataaatgcttgaaatggtccatatctgaattatcctggtttgatcattacatattctatgtttgtaccaaaatatcacaagtaccctgtaaatatgtagaa---ttacatatt
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e dasNov3.JH578070            2363489 2963 +   3081153 I
e canFam3.chr31              18041125 8822 +  39895921 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=83032.000000
s hg38.chr21_GL383579v2_alt    109272 15 +    201197 cataaa--ttaaaaaa-------C
s panTro5.chr21               8727716 15 +  33445071 cataaa--ttaaaaaa-------C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266837 15 +  46275980 cataaa--ttaaaaaa-------C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249418 15 -  13858734 cataaa--ttaaaaaa-------C
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686833 15 - 185818997 cataaa--ttaaaaaa-------C
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321469 15 - 192294377 cataaa--ttaaaaaa-------C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945288 15 -  30496662 cataaa--ttaaaaaa-------C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13469970 15 +  21915920 cataaa--ttaaaaaa-------C
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971054 15 -  90373283 cataaa--ttaaaaaa-------C
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475309 15 +   7543664 cataaa--ttaaaaaa-------C
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246218 15 -  13750039 cataaa--ttaaaaaa-------C
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505610 13 +  50472720 tata----TTTTTAAA-------A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689743 16 +  13128814 tataaT-TTTTTTAAA-------A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13930598 15 -  14377064 tataaT--TTTTTTAA-------A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155592 17 -   9889416 tataaTTTTTCTAAAA-------A
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24871362 22 -  38779656 cataaa--attaaaaaGTAAAACA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2366452 15 +   3081153 CATAAA--TTGCAAAA-------C
i dasNov3.JH578070          I 2963 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e canFam3.chr31              18041125 8822 +  39895921 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=706127.000000
s hg38.chr21_GL383579v2_alt    109287 104 +    201197 ----------------------AAACTTCTTAATCTCAAATAGAGTAAAATGATAAACTAAGGA-ACAGAGGC-AA--AAATAGTATATGTGTCTTCGGGCAAAATATTAGTTTTGAAAATAAACAAATA
s panTro5.chr21               8727731 104 +  33445071 ----------------------AAACTTTTTAATCTCAAATAGAGTAAAATGATAAACTAAGGA-ACAGAGGC-AA--AAATAGTATATGTGTCTTCGGGCAAAATATTAGTTTTGAAAATAAACAAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266852 104 +  46275980 ----------------------AAACTTTTTAATCTCAAATAGAGTAAAATGATAAACTAAGGA-ACAGAGGC-AA--AAATAGTATATGTGTCTTCGGGCAAAATATTAGTTTTGAAAATAAACAAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249433  99 -  13858734 ----------------------AAACTTTTTAATCTCAAATAGAGTAAA-----AAACTAAGGA-ACAGAGGC-AA--AAATAGTATATGTGTCTTCGGGCAAAATATTAGTTTTGAAAATAAAGAAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686848 104 - 185818997 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGATAAACTAAGAA-ACAGAGGC-AA--AAATAGTATATGTGTTTTTGGGCAAAATGTTAGTTTTGAAAATAAACAAATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321484 104 - 192294377 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGATAAACTAAGAA-ACAGAGGC-AA--AAATAGTATATGTGTTTTTGGGCAAAATGTTAGTTTTGAAAATAAACAAATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945303 104 -  30496662 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGATAAACTAAGAA-ACAGAGGC-AA--AAATAGTATATGTGTTTTTGGGCAAAATGTTAGTTTTGAAAATAAACAAATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13469985 103 +  21915920 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGAT-AACTAAGAA-ACAGAGGC-AA--AAATAGTATATGTGTTTTTGGGCAAAATGTTAGTTTTGAAAATAAACAAATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971069 100 -  90373283 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGATAAACTAAGAA-ACAGAGGC-AA--ATATAGTATATGTGTTTTTGGGCAAACTGTTAGTTTTGAAAAT----AAATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475324 104 +   7543664 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGATAAACTAAGAA-ACAGAGGC-AA--AAATAGTATATGTGTTTTTGGGCAAAATGTTAGTTTTGAAAATAAACAAATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246233 104 -  13750039 ----------------------AAACTTCTTAATCTCAAATAGAGTCAAATGATAAACTAAGAA-ACAGAGGC-AA--AAATAGTATATGTGTTTTCGGGCAAAATGTTAGTTTTGAAAATAAACAAATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505623  72 +  50472720 ----------------------AGACTTCTTAATCTCAAATTGATTAAAATGATAAAT--------------------------------TGTTTCAGAGCAAAATATTGGTTTTGAAAAT----AAATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689759  99 +  13128814 ----------------------AGACTTCTTAATCTCAAGTAGATTAAAATGATAAATTAAGAA-AT--AGGCAAA--AAATGGCATATGTGTTTCAGAGCAAAATATTAGCTTTGAAAAT----AAATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13930613  94 -  14377064 ----------------------AGACTTCTTAATCTCA----GATTAAAATGATAAATTAAGAA-AT--AGGC-AA--AAATGGCATATTTGTTTCAGAGCAAAATATTAGTTTTGAAAAT----AAATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155609  98 -   9889416 ----------------------AGACTTCTTAATCTCAAATAGATTAAATAGATAAATTAAGAA-AT--AGGC-AA--AAATGGCATATGTGTTTCAGAGCAAAACAATAGTTTTGAAAAT----AAATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24871384  92 -  38779656 ----------------------AAAATACTTAACATAAAATAGAGTAAA------AACTAAGGATATGGAGGC-AATGATATGTAATAGGCACTTTTTGGTAGGAAATTAG-TTTAAAAATA--------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18049947  52 +  39895921 ----------------------AAACTTTTGAATGTCAAATAGTGTAAAATGATAAACTGAGAA-A-ATAGTC-AA--G---------------------------------------------------
i canFam3.chr31             I 8822 C 0
s dasNov3.JH578070            2366467  69 +   3081153 AGCTTTGATTTATGATAATACAAAATTTTCAAAAATCAAATAGTATAAAATGATAAATTTAGAA-ATAAG------------------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23695105 7768 +  47401472 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=715093.000000
s hg38.chr21_GL383579v2_alt    109391 63 +    201197 AAAACACAAATATAGCAGACATTGGATTAGACCTCTAAAGGAG-----GCAGGATGTTTGAATTGAAG
s panTro5.chr21               8727835 63 +  33445071 AAAACACAAATATAGCAGACATTGGATTAGACCTCTAAAGGAC-----GCAGGATGTTTGAATTGAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22266956 63 +  46275980 AAAACACAAATATAGCAGACATTGGATTAGACCTCTAAAGGAC-----GCAGGATGTTTGAATTGAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249532 63 -  13858734 AAAACACAAATATAGCAGACATTGGATTAGACCTCTAAAGGAG-----GTAGGATGTTTGAATTGAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160686952 63 - 185818997 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GTAGTATGTTTGAATTGAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321588 63 - 192294377 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GTAGTATGTTTGAATTGAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945407 63 -  30496662 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GTAGTATGTTTGAATTGAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13470088 63 +  21915920 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GTAGTATGTTTGAATTGAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971169 63 -  90373283 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GCAGTATGTTTCAATTGAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475428 63 +   7543664 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GTAGTATGTTTGAATTGAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246337 63 -  13750039 AAAACACAAATATAACATACATTGGATTAGACCTCTAAAGGAA-----GTAGTATGTTTGAATTGAAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505695 61 +  50472720 AAAACACAAATTTAACAGACATTGCATTAAAC--CTAAAGGAG-----GTAGTATGTAGGAATTGAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689858 63 +  13128814 AAAACACAAATATAACAGACATTGGATTAGACCTCTAAAGGAG-----GTAGTATGTTTGAATTGAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13930707 63 -  14377064 AAAAAACAAATATAACAGACATTGGATTAGACCTCTAAAGGAG-----GTAGTATTTTTGAATTGAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155707 63 -   9889416 AAAACACAAATATAACAGACATTGGATTAGATCTCTAAAGGAG-----GTCGTATGTTTGAATTGAAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23702873 63 +  47401472 AAAAAACAAATATAATAGACATTGGATTAGACTTTTATAGGAG-----GTAGTATTGTTGAATTGAAG
i micMur3.chr31             I 7768 I 21
s otoGar3.GL873528           24871476 64 -  38779656 ---TAAAAAGTATAGAAGACAGT-GATTAGGCTTTTAGAGGAGATATCATAGTCTTGTTGACTTGAAG
i otoGar3.GL873528          C 0 I 6
s canFam3.chr31              18049999 56 +  39895921 -------GAGTACAAGAGATATTGGATTAAGCTTTTAAAGGTG-----ATGTTATGGTTGAGTGGAAG
i canFam3.chr31             C 0 I 13
s dasNov3.JH578070            2366536 63 +   3081153 AGGAAAAAAATATAGTAGACATTGCATTGAACTTTTAGAGGAG-----GTATTATGGTCATATTGAAG
i dasNov3.JH578070          C 0 C 0
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=58114.000000
s hg38.chr21_GL383579v2_alt    109454  8 +    201197 -AATTACTC---------
s panTro5.chr21               8727898  8 +  33445071 -AATTACTC---------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22267019  8 +  46275980 -AATTACTC---------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249595  8 -  13858734 -AATTACTC---------
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160687015  8 - 185818997 -AATTACTC---------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321651  8 - 192294377 -AATTACTC---------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945470  8 -  30496662 -AATTACTC---------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13470151  8 +  21915920 -AATTACTC---------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971232  8 -  90373283 -AATTACTC---------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475491  8 +   7543664 -AATTACTC---------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246400  8 -  13750039 -AATTACTC---------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505756  8 +  50472720 -AATTACTC---------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689921  8 +  13128814 -AATTACTT---------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13930770  8 -  14377064 -AACTAATC---------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155770  7 -   9889416 -AATTA-TT---------
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24871546  8 -  38779656 -GGCTGTTC---------
i otoGar3.GL873528          I 6 I 7
s canFam3.chr31              18050068  8 +  39895921 -tcctactc---------
i canFam3.chr31             I 13 I 32
s dasNov3.JH578070            2366599 18 +   3081153 GAATTTTTTTTCCCAACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23702936 21 +  47401472 I
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=8138526.000000
s hg38.chr21_GL383579v2_alt    109462 712 +    201197  
s panTro5.chr21               8727906 713 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22267027 713 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8249603 713 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160687023 712 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167321659 712 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4945478 711 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13470159 715 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971240 711 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3475499 715 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5246408 714 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26505764 705 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8689929 709 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13930778 705 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9155777 692 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23702957 710 +  47401472  
i micMur3.chr31             I 21 C 0
s otoGar3.GL873528           24871561 703 -  38779656  
i otoGar3.GL873528          I 7 C 0
s canFam3.chr31              18050108 701 +  39895921  
i canFam3.chr31             I 32 C 0
s dasNov3.JH578070            2366617 669 +   3081153  
i dasNov3.JH578070          C 0 C 0
e nomLeu3.chr25               9272109 2206 +  32716333 I

a score=166382.000000
s hg38.chr21_GL383579v2_alt    110174 11 +    201197 TTAGGCATAAT
s panTro5.chr21               8728619 11 +  33445071 TTAGGCATAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22267740 11 +  46275980 TTAGGCATAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250316 11 -  13858734 TTAGGCATAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274315 11 +  32716333 TTAGGCATAAT
i nomLeu3.chr25             I 2206 C 0
s rheMac8.chr3              160687735 11 - 185818997 TTAGGCATAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322371 11 - 192294377 TTAGGCATAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946189 11 -  30496662 TTAGGCATAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13470874 11 +  21915920 TTAGGCATAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971951 11 -  90373283 TTAGGCATAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476214 11 +   7543664 TTAGGCATAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247122 11 -  13750039 GTAGGCATAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506469 11 +  50472720 TTAGGCATAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690638 11 +  13128814 ATAGGCATAAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13931483 11 -  14377064 TTAGGCATAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156469 11 -   9889416 TTAGGCATAAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23703667 11 +  47401472 TCAGGCATAAT
i micMur3.chr31             C 0 I 267
s otoGar3.GL873528           24872264 11 -  38779656 TCAGACAGAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18050809 11 +  39895921 CCAGACATAAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367286 11 +   3081153 TTAGGCATAAC
i dasNov3.JH578070          C 0 C 0

a score=36442.000000
s hg38.chr21_GL383579v2_alt    110185 3 +    201197 GAA
s panTro5.chr21               8728630 3 +  33445071 GAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22267751 3 +  46275980 GAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250327 3 -  13858734 GAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274326 3 +  32716333 GAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160687746 3 - 185818997 GAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322382 3 - 192294377 GAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946200 3 -  30496662 GAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13470885 3 +  21915920 AAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971962 3 -  90373283 GAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476225 3 +   7543664 GAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247133 3 -  13750039 GAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506480 3 +  50472720 AAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690649 3 +  13128814 AAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13931494 3 -  14377064 AAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156480 3 -   9889416 AAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24872275 3 -  38779656 AAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18050820 3 +  39895921 AAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367297 3 +   3081153 AAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23703678 267 +  47401472 I

a score=2556047.000000
s hg38.chr21_GL383579v2_alt    110188 263 +    201197 AGAATCCAAACTGGCA-----------AGAGGC---------AGCCATT-----ATGGTCTCTTCAAAATT-TCTTCACTCTATTTTCCTTTGTCCTAGAAAACTCTTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAATCCTCTGCAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCC-----TAGACTTCTAAGATATTTTTGTATTCCAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ATTAGATTGTGTATAAGTTGCTACTTGTTGGGA
s panTro5.chr21               8728633 263 +  33445071 AGAATCCAAACTGGCA-----------AGAGGC---------AGCCATT-----ATGGTCTCTTCACAATT-TCTTCACTCTATTTTCCTTTGTCCTAGAAAACTCTTGAGTTCTCCCTGAAAGGAGACTA--AGGA--ACAATCCTCTGCAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCC-----TAGACTTCTAAGATATTTTTGTATTCCAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ATTAGATTGTGTATAATTTGCTACTTGTTGGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22267754 263 +  46275980 AGAATCCAAACTGGCA-----------AGAGGC---------AGCCATT-----ATGGTCTCTTCAAAATT-TCTTCACTCTATTTTCCTTTGTCCTAGAAAACTCTTGAGTTCTCCCTGAAAGGAGACTA--AGGA--ACAATCCTCTGCAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCC-----TAGACTTCTAAGATATTTTTGTATTCCAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ATTAGATTGTGTATAATTTGCTACTTGTTGGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250330 263 -  13858734 AGAATCCAAACTGGCA-----------AGAGGC---------AGCCATT-----ATGGTCTCTTCAAAATT-TCTTCACTCTATTTTCCTTTGTCCTAGAAAACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAATCCTCTCCAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCG-----TAGACTTCTAAGATATTTTTGTATTCCAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ATTAGATTGTGTATAAGTTGCTACTTGTTGGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274329 260 +  32716333 AGAATTCAAACTGGCA-----------AGAGGC---------AGCCATT-----ATGGTCTTTTCAAAATT-TCTTCACTCTATTTTCCTTTGTCCTAGAAAACTCCTGAGTTCTCCCTGGAAGGAGACTA--AAGA--ACAAGACTCTCCAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCC-----TAGACTTCTAAGATATTTTTGTATTCCAATATTTAAT-------------------------------------------------------------------GTATTTAT-ACTAGATTGTGTATAAGTTGCTACTTGTTGGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160687749 266 - 185818997 AGCATCCAAACTGGCA-----------AGAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGAAAACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAGTCCTCT-CAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAACGTTCCACAGGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTAATACAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ACTACATTATGTATAAATTGCTACTTGTTGGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322385 266 - 192294377 AGCATCCAAACTGGCA-----------AGAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGAAAACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAGTCCTCT-CAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAACATTCCACAGGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTATTACAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ACTACATTATGTATAAATTGCTACTTGTTGGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946203 266 -  30496662 AGCATCCAAACTGGCA-----------AGAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGAAAACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAGTCCTCT-CAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTGTAAGAACGTTCCACAGGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTATTACAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ACTACATTATGTATAAATTGCTACTTGTTGGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13470888 268 +  21915920 AGCATCCAAACTGGCA-----------AGAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGAAAACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAATCCTCTCCAGATGTGTCTGAATCCTAAAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTATTACAATATTTGATGTA----------------------------------------------------------------GTATTTAT-ACTACATTATGTATAAATTGCTACTTGTTGGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19971965 267 -  90373283 AGCATCCAAACTGGCA-----------AGAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGAAAACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAATCCTCTCCAGATGCGTCTGAATCTT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTATTACAATATTTAATGTA----------------------------------------------------------------GTATTTAT-ACTACATTGTGTATAAATTGCTACTTGTTGGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476228 266 +   7543664 AGCATCCAAACTGGCA-----------AGAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGAACACTCCTGAGTTCTCCCTGAAAGGAGACTA--AAGA--ACAATCCTCT-CAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAACATTCCACAGGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTATTACAATATTTAATGTA----------------------------------------------------------------GCATTTAT-ACTACATTATGTATAAATTGCTACTTGTTGGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247136 267 -  13750039 AGCATCCAAACTGGCA-----------ACAGGC---------AGCCATC-----ATGAACTCTTCAAAATT-TCTTCACTCTATTTTCCTTTTTCTTAGACAACTCCTGAATTCTCCCTGAAAGGAGACTA--AAGA--ACAATCCTCTCCAGATGTGTCTGAATCCT-AAAATGAACTTAAGGTATGTCTAAGAAGGTTCCACAAGAATTCCTAAAGTAGACTCCTAAAATA-TTTTGTATTACAATATTTGATGTA----------------------------------------------------------------GTATTTAT-ACTACATTATGTATAAATTGCTACTGGTTGGGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506483 267 +  50472720 ATAATCTAAACAGGCA-----------GGTCAC---------AGTCATC-----ATGTTCTCTTCAAAATA-GCTTCACTATATATTCCTTTTTCCTAGAAAACTTCTGAGTTCTCCCTGAAAGGAGACTA--ATGA--ACAATCATCACCAGATATCCCTGAATCCT-AAAATTAACTTAAAATATGTCTAAGAATGTTCCACAAGAATTCCTAAAGCATACACCTAAGAAA-TTTTGTATTACAATATTTAATATA----------------------------------------------------------------GTATATAT-GCTACATTGTGTATAAATTGCTACTTGTTGGAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13931497 262 -  14377064 AGAATCTAAACTGGCA-----------GGTCAC---------AGCCATC-----ATGTTCTCTTCAAAATA-TCTTCACTATGTATTCCTTATTCCTCGAAAACTCCTGAGTTCTCCCTGAAAAGAGACTA--AAGA--ACAATCATCCCCAGATATCCCTGAATCCT-AAAATGAACTTAAGATATGTCTAAGAATGTTTCACAAGAATTCCTAG-----ACGCCTAAGAAA-TTTTGTATTACAATATTTAATATA----------------------------------------------------------------GTATTTAT-GCTACATAGTGTATAAATTACTACTTGTTGGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156483 269 -   9889416 ATAATCTAAACTGGCA-----------GGTCAC---------AGCCATC-----ATGTTCTCTTCAAAATA-TCTTGACTATATATTCCTGTTTCCTAGAACACTCCTGAGTTCTCCCTGAAAAGAGACTA--AAGAACACAATCATCCCCAGATATCCCTGAATCCT-AAAATGAACTTAAGATGTGTCTAAGAATGTTCCACAAGAATTCCTAAAGTAGACGCCTAAGAAA-TTTTGTATTACAATATTTAATATA----------------------------------------------------------------GTATTTAT-GCTACATTGTGTATAAATTGCTACTTGTTGGGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24872278 275 -  38779656 GGAGGCTAAGTTAACAAAAGACACGAGAGAGAC---------AGCTCCT-----ATTCTCTCTTCAAAATT-CCCTTCCTCTATTTTCCTTTTGC-TAGGAAACTCCTGAGTCTTCCCTGAACAGAGATGA--AAGG--ACAACCCTCCTCAGATATGTCTGAATTCT-AAAATGAACTCAATATATATTCAAGCAGGTTGTACAAAAATTAT--AAGCAGACCCCTAAAATA-TTTTGTATTGTAATATATAATGTA----------------------------------------------------------------GTATTTAT-ATTAGTTTATGTACAAATTACTACTTATTGGAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18050823 343 +  39895921 GGAGACTAAGCTAATA-----------ACAAACATGACGGATAGCCACCATCCTATGCTCTTTGCAAAATT-TTCTTCCTTCATTTT-CTTCTTCAGAGGAAATCCCTAAGTTCTCTGTGAAAAGAAACTGTCCGTG--ACAATCCTCC-CTGATATGTCTGAATCCT-GAAGTGAACTCAAGATATATTTCAGCTGGTTGTATAA-AATTTCTAATGCAAACCCCTAAAATA-TTTTGTATTACACTGTTTAAAATAGTATTTGTATGCGTTATAATTTAATATGGGATTAGTTTAATTAGCATTGATTTAGTTTAATATCGTATTTAT-ACCAGTTTATGTATAAATTGTTACTTTTGGGG-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367300 276 +   3081153 GGTCACTAGGCTAGCA-----------GCAAACATGAAAG--AACTACC-----ACGCTCTCTTCAAAATTATGTTCATTTCTATTTCCCTCATTCTAGAAAGCTGTTGAGTCCTCCATGGAAACAGACTG--GAGG--ATAATCCTCCAAAGATTTGAAAGAATCCT-AAATTAAACCCAAGTTCTATTCAGGCTGGTTATAAAAAAATTACTAGAGTAGACCCCTACAATA-TTTTATACCATAATATCTACTGTA----------------------------------------------------------------CTGTTAATGAGTAATTTATGTAAAAATTGTGACTTATTTTGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23703678 267 +  47401472 I
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=1094619.000000
s hg38.chr21_GL383579v2_alt    110451 96 +    201197 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTTCATAGAAAAATAAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
s panTro5.chr21               8728896 96 +  33445071 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTTCATAGGAAAATAAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22268017 96 +  46275980 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTTCATAGGAAAATAAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250593 96 -  13858734 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTTCATAGGAAAATAAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274589 96 +  32716333 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTTCATAGGAAAATAAATTGCTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160688015 96 - 185818997 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTGCATAGGAAAATGAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322651 96 - 192294377 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTGCATAGGAAAATGAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946469 96 -  30496662 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTGCATAGGAAAATGAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13471156 96 +  21915920 AATTTTGACTTATGGCCTTATTCTCTTCATTTTTAGATTTT-TAGTGCATAGGAAAATGAATTGTTTAATTCTCA-----ATGC----CAAATATTTTATGAGAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19972232 96 -  90373283 AATTTTGACTTATTGTCTTGTTCTCTTCATTTTTAGATTTT-TAATGCATAGGAAAATGAATTGTTTAATTCTTA-----ATAC----CAAATATTTGATGAGAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476494 96 +   7543664 AATTTTGACTTATTGCCTTATTCTCTTCATTTTTAGATTTT-TAGTGCATAGGAAAATGAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247403 96 -  13750039 AATTTTGACTTATTGTCTTATTCTCTTCATTTTTAGATTTT-TAGTGCATAGGAAAATAAATTGTTTAATTCTCA-----ATGC----CAAATATTTGATGAGAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506750 96 +  50472720 AATTTTGACTTATTGGTTTATTATCTTCATTTTTAGTTCCT-AAGGTCATAGGAAAATAAATTGTCTAATTCTCA-----ATGT----CTAATATTTGATGATAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13931759 96 -  14377064 AATTTTGACTTATTGGTTTATTATCTTCATTTTTAGTTTCT-TAGGTCATAGGAAAATAAATTGTCTAATTCTCA-----ATGT----CCAATATTTGATGAGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156752 96 -   9889416 AATTTTGACTTACTGGCTTATTATCTTCATTTTTAGTTTCT-TAGGTCATAGGAAAATAAATTGTCTAATTCTCA-----GTGT----CCAATATTTGATGAGACT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23703945 96 +  47401472 AATTTTGACTTATTG-CTGATTTTCTTCATTTTTAATTTTCCTAGTTTATAGCTAAATAACTTGTCTCATTCTCA-----ATGC----CCAATATTTGATGAGAAT
i micMur3.chr31             I 267 I 56
s otoGar3.GL873528           24872553 90 -  38779656 GATCTTGACTTATTG-CCTATTCCATTCTTTTTTAAAGTCC---ATTTA---CTAAATAAATTGTTTCATTCTCA-----ATGT----ATAATAGTTGATGAGAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18051166 92 +  39895921 GATTTTGACTTTTTGCCTGATTTTCTTCATCTTTA-----T-TTGTTCATAGCTAAATA----GTCTAATTTTCACTCTCATGC----CCAATAGTTCAGAAGAAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367576 99 +   3081153 -AATTTGACTTATTGCCTTATTCTCCTCATCTTTAATTTTT-TTGTCTTTAGCTAGAGAAATGGTCTCATTCTCA-----TTCTTGAGCCAATATTTAATAAGAAC
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8690652  0 +  13128814 C

a score=283363.000000
s hg38.chr21_GL383579v2_alt    110547 37 +    201197 CCAAAGAGGAATTAAAAC-----TATATTTG-----TTACTGTCA-----TT
s panTro5.chr21               8728992 37 +  33445071 CCAAAGAGGAATTAAAAC-----TATATTTG-----TTACTGTCA-----TT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22268113 37 +  46275980 CCAAAGAGGAATTAAAAC-----TATATTTG-----TTACTGTCA-----TT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250689 37 -  13858734 CCAAAGAGGAATTAAAAC-----TATATTTG-----TTACTGTCA-----TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274685 34 +  32716333 CTAAA---GAATTAAAAC-----TATATTTG-----CTACTGTCA-----TT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160688111 37 - 185818997 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322747 37 - 192294377 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946565 37 -  30496662 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13471252 37 +  21915920 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19972328 37 -  90373283 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476590 37 +   7543664 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247499 37 -  13750039 CTACAGAGGAATTAAAAA-----TATATTTG-----TTACTCTCA-----TT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506846 35 +  50472720 CTAAAGAGAAATTAAAA-------ATGTTTG-----TTACTATCA-----TT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13931855 35 -  14377064 CTAAAGAGGAATTAAAA-------ATATTTG-----TTACGATCA-----TT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156848 35 -   9889416 CTAAAGAGGAATTAAAA-------ATGTTTG-----TTACTATCA-----TT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24872643 42 -  38779656 TTAAATAGGATTTGAACG-----AATTTTAG-----TTATTAACATTTTTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18051258 47 +  39895921 TTAAAGAGAATTTAAGAAATGtttatttttaaaagtttattatta-----tt
i canFam3.chr31             C 0 I 239
s dasNov3.JH578070            2367675 32 +   3081153 CTA-----GTTTTAAAAA-----AATTGCTG-----TGATTGTCT-----TT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23704041 56 +  47401472 I
e saiBol1.JH378168            8690652  0 +  13128814 C

a score=202689.000000
s hg38.chr21_GL383579v2_alt    110584 19 +    201197 CTAAAACTTAGCTACATGC
s panTro5.chr21               8729029 19 +  33445071 CTAAAACTTAGCTACATGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22268150 19 +  46275980 CTAAAACTTAGCTACATGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250726 19 -  13858734 CTAAAACTTAGCTACATGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274719 19 +  32716333 CTAAAACTTAGCTACATGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160688148 19 - 185818997 CTAAAACTTAGCTATATGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322784 19 - 192294377 CTAAAACTTAGCTATATGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946602 19 -  30496662 CTAAAACTTAGCTATATGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13471289 19 +  21915920 CTAAAACTTAGCTATATGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19972365 19 -  90373283 CTAAAACTTAGCTATATGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476627 19 +   7543664 CTAAAACTTAGCTATATGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247536 19 -  13750039 CTAAAACTTAGCTATATGC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506881 19 +  50472720 CTGAAACTTAGGTACATGT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13931890 19 -  14377064 CTGAAACTTAGGTACATGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156883 19 -   9889416 CTGAAACTTAGGTACATGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24872685 19 -  38779656 CTAAAACTTAGGCACGTGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18051544 19 +  39895921 CTAATATTTAGCTACATAA
i canFam3.chr31             I 239 C 0
s dasNov3.JH578070            2367707 17 +   3081153 CTAAG--TTAGCTAAATAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23704041 56 +  47401472 I
e saiBol1.JH378168            8690652  0 +  13128814 C

a score=280156.000000
s hg38.chr21_GL383579v2_alt    110603 21 +    201197 TTTAGCTTTTCAG-ATACAATT
s panTro5.chr21               8729048 21 +  33445071 TTTAGCTTTTCAG-ATACAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22268169 21 +  46275980 TTTAGCTTTTCAG-ATACAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250745 21 -  13858734 TTTAGCTTTTCAG-ATACAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274738 21 +  32716333 TTTAGCTTTTCAG-ATACAATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160688167 21 - 185818997 TTTAGCTTTTCAG-ATACAATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322803 21 - 192294377 TTTAGCTTTTCAG-ATACAATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946621 21 -  30496662 TTTAGCTTTTCAG-ATACAATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13471308 21 +  21915920 TTTAGCTTTTCAG-ATACAATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19972384 21 -  90373283 TTTAGCTTTTCAG-ATACAATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476646 21 +   7543664 TTTAGCTTTTCAG-ATACAATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247555 21 -  13750039 TTTAGCTTTTCTG-ATACTATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26506900 21 +  50472720 TTTAGCTTTTCAG-ATACAATT
i calJac3.chr21             C 0 I 311
s cebCap1.NW_016107322v1     13931909 21 -  14377064 TTTAGCTTTTCAG-ATACAATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156902 21 -   9889416 TTTAGCTTTTCAG-ATACAACT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23704097 21 +  47401472 TTTAGTTTTTCAG-ATACAACT
i micMur3.chr31             I 56 C 0
s otoGar3.GL873528           24872704 22 -  38779656 TTCAGCTTTTCAGAAAAAAACT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18051563 21 +  39895921 TTTAGTTTTTCAG-ATACAATT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367724 21 +   3081153 TGCAGTTTTTCAC-ATACACAT
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8690652  0 +  13128814 C

a score=2085112.000000
s hg38.chr21_GL383579v2_alt    110624 181 +    201197 GTGACAGATATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTTATAAGCTGATTTTTCTGTTTGGTGAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttctcaatgttgatttaTATTAT
s panTro5.chr21               8729069 181 +  33445071 GTGAAAGATATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTTATAAGCTAATTTTTCTGTTTGGTGAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttctcaatgttgatttaTATTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22268190 181 +  46275980 GTGAAAGATATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTTATAAGCTAATTTTTCTGTTTGGTGAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttctcaatgttgatttaTATTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250766 181 -  13858734 GTGAAAGATATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTTATAAGCTAATTTTTCTGTTTGGTGAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtgttatttctcaatgttgatttaTATTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274759 182 +  32716333 GTGAAAGATATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATATTTTAAACTTATAAGCTAATTTTTCTGTTTGGTGAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttctcagtgttgatttaTATTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160688188 181 - 185818997 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTAATAAGCTGATTTTTCTGTTTGGTAAACTCATAGCAGAACTCTGCTTC---------------------------------------TGCACATAAT---------------------------------------ATTCTTTTAGAAACCATGTATTATTTTTCAATGTTGATTTATATTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167322824 181 - 192294377 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACCAATAAGCTGATTTTTCTGTTTGGTAAACTTGTAGCAGAACTCTGCTTC---------------------------------------TGCACATAAT---------------------------------------ATTCTTTTAGAAACCATGTATTATTTTTCGATGTTGATTTATATTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946642 181 -  30496662 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTAATAAGCTGATTTTTCTGTTTGGTAAACTCGTAGCAGAACTCTGCTTC---------------------------------------TGCACATAAT---------------------------------------ATTCTTTTAGAAACCATGTATTATTTTTCAATGTTGATTTATATTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13471329 181 +  21915920 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTAATAAGCTGATTTTTCTGTTTGGTAAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttttcaatgttgatttaTATTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19972405 181 -  90373283 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAaaatgcaaata-tttaaactaataagctgatttttctgtttggtaaacttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttttcaatgttgatttatattat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476667 181 +   7543664 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTAATAAGCTGATTTTTCTGTTTGGTAAACttgtagcagaactctgcttc---------------------------------------tgcacataat---------------------------------------attcttttagaaaccatgtattatttttcaatgttgatttaTATTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247576 181 -  13750039 GTGAAAGACATAGTACACATTGCT-----CTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAATA-TTTAAACTAATAAGCTGATTTTTCTGTTTGGTAAACTTATAGCAGAACTCTGCTTC---------------------------------------TGCACATAAT---------------------------------------ATTCTTTTAGAAACCATGTATTATTTTTCAATGTTGATTTACATTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26507232 182 +  50472720 GTGAAAGATACACTACACATTGCT-----GTTTTGAAAAGTTTGAGTAAAATAAAATAATGAAAATGCAAACAGTTTAAACTAATATGCTAATTTTTCTGTTTGGTAAACTTGTAGCAGAACTCTGCTTC---------------------------------------TGCGAATAAT---------------------------------------ATACTTTTAGAAACCATGTATTATTTCTCAAGGTTGTTGTATATTAT
i calJac3.chr21             I 311 C 0
s cebCap1.NW_016107322v1     13931930 182 -  14377064 GTGAAAGATACACTACACATTGCT-----GTTTTGAAAAGTTTGAGCAAAATAAAATAATGAAAATGCAAATAGTTTAAACCAATATGCTAATTTTTCTGTTTGGTAAACTTGTAGCAGAACTCTGCTTC---------------------------------------TGCACATAAT---------------------------------------ATACTTTTAGAAATCATGTATTATTTCTCAAGGTTATTGTATATTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9156923 182 -   9889416 GCGAAAGCTACGCTACACATTGCT-----GTTTTGAAAAGTTTGagtaaagtaaaataatgaaaatgtaaatagtttaaactaaTATGCTAATTTTTCTGTTTGGTAAACTTGTAGCAGAACTCTGCTTC---------------------------------------TGCACATAAT---------------------------------------TTACTTTTAGAAACCATGTATTATTTCTCAAGGTTATTGTATATTAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23704118 181 +  47401472 GTGAAGGATATACTACACATTGTT-----CTGGTGAAAAGTTTGAGTAAGATAAAATACTGAaaatgcaaataatttaaattaagaagttaaattttctgtttaatgaactttcagcagaactgtcttta---------------------------------------tgcatataac---------------------------------------tttcctttagaaaccattt-ctatttcccaatgttgatttatattat
i micMur3.chr31             C 0 I 940
s otoGar3.GL873528           24872726 186 -  38779656 GTGAAGGATATGCCACAGATTGTGGCAAACTTGTGAGAAGTTTGAATAAGATAAAATAGTGAAAATGCAAATAAATTACACCAGGGAGTCAATGTTTCTGTTTGGCAAACTTTCAGCAGAACTTCACTTC---------------------------------------TGTACATAAT---------------------------------------GTTCCTTTAGAAACCATTT-CTATTTCTCAGTGTTGATTTATACTGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18051584 178 +  39895921 GTGAAGGATATACTGCATAATATT-----CTTGTGGAATGCTTAAGTAAAATAAAGTCCTGGAAATACAAATA-CTTTAAGAAGCTTGGTAAACTCTC--TTTGGTAAACTTTTAACAGAATTTTGCCTC---------------------------------------TGTACATGAT---------------------------------------GTTCCTTTGGAAACCATTT-TTATTTCTCAATGTTAATTTGAATTGC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367745 251 +   3081153 -CTAAGGATCTAGTCCATACTGTT-----CCTGTAGAAGGCTGGAGTAAAATAAATAACTGGAAATG-AAATA-CTTTGTTTTATACAC-----TTTGTATCAGGTGGGCTTGCCACTGGACTTTTCCttttttttcctaggtactggggattgaacccaagacTGAAATGCAAATACTTTAAACTAAGACATTAATTTTTCTGCCTGGTACTCTTGAGTTCTTTTAGAAAACATTTACT-TTTATGTATTTTTATTTGTAATCC
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=8720195.000000
s hg38.chr21_GL383579v2_alt    110805 930 +    201197  
s panTro5.chr21               8729250 933 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22268371 929 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8250947 929 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9274941 942 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160688369 945 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167323005 945 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4946823 945 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13471510 924 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19972586 924 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3476848 925 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5247757 926 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26507414 918 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13932112 939 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9157105 925 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24872912 934 -  38779656  
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18051762 949 +  39895921  
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2367996 915 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23704299 940 +  47401472 I
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=5168691.000000
s hg38.chr21_GL383579v2_alt    111735 423 +    201197 CTAATTTCCTTAGGTAAAAATAGGGT-GGGTGCAGTAGGACCATGAATACAGAATTTGTAGCATATACATCTAAATTTCAATTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTAAGTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGGCTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACCTATATGTAACATAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCCGAGAATGAAGAAATATCTACAGGGAAAACTCATCTCTGGCAAGCAGAAAAGATGAGATTTCATAAAATGAGGTTTAAGGGGAATA-GTTCACTTTCATT
s panTro5.chr21               8730183 423 +  33445071 CTAATTTCCTTAGGTAAAAATAGGGT-GGGTGCAGTAGGACCATGAATACATAATTTGTAGCATATACATCTAAATTTCAATTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACGTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGGCTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACCCATATGTAACATACATTAGGTAGCAAAATTATCTTGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAGGGAAAACTCATCTCTGGCAAGCAGAAAAGATGAGATTTCATAAAATGAGGTTTAAGGGGAATA-GTTCACTTTCATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22269300 423 +  46275980 CTAATTTCCTTAGGTAAAAATAGGGT-GGGTGCAGTAGGACCATGAATACATAATTTGTAGCATATACATCTAAATTTCAATTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACGTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGGCTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACCTATATGTAACATACATTAGGTAGCAAAATTATCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAGGGAAAACTCATCTCTGGCAAGCAGAAAAGATGAGATTTCATAAAATGAAGTTTAAGGGGAATA-GTTCACTTTCATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8251876 422 -  13858734 CTAATTTCCTTATGTAAAAATAGGGT-GGGTGCAGTAGGACCATGAATACAGAATTTGTAGCATATACATCTAAATTTGAATTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACGTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGGCTGAATAGACCTAGTAGGAAGAGATGCTAAAGAAT-GGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACCTATATGTAACATACATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAGGGAAAACTCATCTCTGGCAAGCAGAAAAGATGAGATTTCATAAAATGAGGTTTAAGGGGAATA-GTTCACTTTCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9275883 423 +  32716333 CTAATTTCCTTAGGTAAAAATAGGGT-GGGTGCAGTAGAGCCATGAATACAGAATTTGTAACATATACATCTAAATTTCAATTTAGCAAAGAATCCCAAGAAGAAAATTACTTGCAATCACTTTCTACAGTAATTTTCCTCTACCTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGGCTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATATATAAGATAGTTTTACCTATATGTAATGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAGGGAAAACTCATCTCTGGCAAGCAGAAAAGATGAGATTTCATAAAATGAGGTTTAAAGGGAATA-GTTCACTTTCACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160689314 423 - 185818997 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAGTAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAACTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACTTTCCTTGTCCTTAAAAGAAGCTACTATGATGAAGTGACTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACATATATGTAAAGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATA-GTTCATTTTCATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167323950 423 - 192294377 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAGTAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAACTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACTTTCCCTGTCCTTAAAAGAAGCTACTATGATGAAGTGACTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACATATATGTAAAGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATA-GTTCATTTTCATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4947768 423 -  30496662 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAGTAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAACTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACTTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGACTGAACAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACATATATGTAAAGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATA-GTTCATTTTCGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13472434 423 +  21915920 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAGTAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAATTTAGCAAAGAATTCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACTTTCCCTGTCCCTAAAAGAAGCTAATATGATGAAGTGACTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACATATATGTAAAGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATA-GTTCACTTTCATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19973510 422 -  90373283 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAGTAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAATTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACCTTCCCTGTCC-TAAAAGAAGCTAATATGATGAAGTGACTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTATGTATATGTAAAGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGACAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATA-GTTCACTTTCATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3477773 423 +   7543664 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAGTAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAACTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTAATTTTCCTCTACTTTCCCTGTCCTTAAAAGAAGCTAATATGATGAAGTGACTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACATATATGTAAAGTAAATTAGGTAGCAAAATTACCTAGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATA-GTTCACTTTCATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5248683 423 -  13750039 CTAATTTCCTTAGGTGAAAATAGGGT-AGGTGCAATAGAATCATGAATACAGAATTTGTAACATATACATCTAAATTTCAATTTAGCAAAGAATCCCAAGAAGAAAATTACATGCAATCACTTTCTACAGTCATTTTCCTCTACCTTCCCTGTCCTTACAAGAAGCTAATATGATGAAGTGACTGAATAGACCTAGTAGGAAGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACGTATATGTAAAGTAAATTAGGTAGCAAAATTACCTGGGGAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAAGGAAAATTCATCTCTGGCAAGCAGAAAAGATGAGATTACATAAAATGAGGTTTAAGGGGAATC-GTTCACTTTCATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26508332 416 +  50472720 CTAATTTCCGTAGGTAAA---AGAGT-GGGTGCAGTAGAACCATGAATACGGAATTTGTAATATATACACCTAAATTTCAATTTAGCAAAGAATGCCAAGAAGAAAATTACATGCAATCACTTTCTGTAGTAATTTCCCCCTATC-TCCCTGTACTTAAAGGAAGATAATATGATAAAGTGGCTAAATAGATCTAGTATGAAGAGATGCTAAAGAATAGGATTAGAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACCTATATGTAAAATAAATTAGGTAACAGAATTATGTGGGAAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATACCTACAGGGAAATTCTA---CAGGCAAGCAGAAATGATGAGATTACATGAAATGAGATTTAGGGGGAATA-ATTCACTTTCATT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933051 420 -  14377064 CTAATTTCCTTAGGTAAAAATAGAGT-GGGTGCAGTAGAACCATGAATATGGAATTTGTAACATATACATCAAAATTTCAATTTAGCAAAGAATGCCAAGAAGAAAATTACATGCAATCACTTTCTGTAGTAATTTTCCTCTATCTTCCCTGTACTTAAAGGAAGATAATATGATGAAGTGGCTAAATAGATCTAGTAGGAGGAGATGCTAAAGAATGGGATTATAGTAATTTATTATTCAATCATCTATAAAATAGTTTTACCTATATGTAAAATAAATTAGCTAACAGAATTATGTGGGAAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATACCTACAGGGAAATTCTA---CAGGCAAGCAGAAATGATGAGATTACATGAAACGAGACTTAAGGGGAATA-GTTCACTTTCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158030 420 -   9889416 CTAATTTCCTTAGGTAAAAATAGAGT-GGGTGCAGTAGAACCATGAATACAGAATTTGTAACATATACATCTAAATTTCAATTTAGCAAAGAATGCCAAGAAGAAAATTACATGCAATCACTTTTTGTAGTAATTTTCCTCTATCTTCCCTGTACTTAAAGGAAGCTAATATGATGAAGTGGCTAAATAGATCTAGTATGAAGAAATGCTAAAGAATGAGATTATAGTAATTTATTATTCAATCATCTATAAGATAGTTTTACCTATATGTAAAATGAATTAGGTAACATAATTATGTGGGAAAAAATAAC-ATCAGTCTAGTGGCTGAGAATGAAGAAATATCTACAGGGAAATTCTA---CAAGCAAGCAGAAATGATGAGATTACATGAAATGAGATTTAAGGGGAATA-GTTCACTTTCATT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23705239 419 +  47401472 CTAATTTCCTCAAATGAAAATAGGGT-TGGTGCAGTAGAACCATGACTTCATGATTTGGAGCATATGCATCTAAATTTCAATTTGGCAAAG---TTAAGGATGAAAATTATATGTAATCACTTTCTATAGTAATTTTTC-CCAACTTCTCTGTTCTTAAAGGAGGCTAATATGATGAAGTAGTTGAATAAGAGCAGTATGATGAGATGCTAAAGAATGGAATTATAATGACGTATCATCCAATCATTTATAAGATAGTTTTACCTGTATGTAAAGTAAATTAGATAACAAAATTACCTGGGGAAAAATAAC-ATTAGTGTAGTGGCTAAGAATGAAGAAATATCTATAGTGAAATTTCATTTCTGGCAAGCAGAGAGGTTGAGATTACATAAATTGAGATTTGAGGGGAATG-GTTCACTATCATT
i micMur3.chr31             I 940 I 258
s otoGar3.GL873528           24873847 414 -  38779656 AAAATTCCCACAGATAAAAATAGGGT-TAGTGAAGTAGAATCGTGACTTCATGATTTAGAGCGTATACATCTAAA-TTCAATTTAGCAAAC---CTCAAGATGAGAATTACATGTGATCACTTTCTATAGTAATTTGCCTCTATCTTCCCTGTTCTTGAAGGAAACTAAT---ATGAAGTGGCTGAATAGGGCCAGTCCGATGACATGCTCGAGAATGGAATTATAGTAATGTATCATCCAGT-ATTTATAAGATAGTTTTATCTATATGTAAAGTGAATTGGATAACAAAGTTACCTGGGGAAAAATAAT-ATCAGTCTAGTAGCCGAGAATGAAGAAATATCTACAGGGAAATTTCATTTCTGG-AAGCAGAGATGTTGAGATTACATAAAATGAGATTGGAGGGAAATA-GTTCACTATCACT
i otoGar3.GL873528          I 1 I 4
s canFam3.chr31              18052711 419 +  39895921 CAAATTTTCTCAGATGAAAAGAGTGT-GAGTATAGCAGAACCATGACTTCATGATTTGGAGCATGTACATCTAAATTTTAATTTAGTAAAGAGGCCCAA-ATGAAAATTATATGCAATCATGTTCTACAGTAATTT-CCTCTAGCTTCACTGTTCTGAAAGGAAGTTAATGTCATGAAGTGGTTGAATTGAGGCTGCATG--GAGATGCTAAAGAATGGGATTGTAATAACGTACCATCCAATCATTTATAAGATAGTGTTCCCTAGATGTAAAATAAATTGGGTAACAAAGTTACCCAGGGAAAAATAAT-ATCAG-CTAATGACTGAGGAGGAGGTAATGTCTATGGTAAAATTTAGTGTCTGGCAAGCAGAAGTGTGGAGATTACATAGCATGAATTTTGAAGGGAACAGGTTCGCTATCTTT
i canFam3.chr31             C 0 I 3
s dasNov3.JH578070            2368911 379 +   3081153 ----------CTGATGAAAATGGGGTAAAATGCAATAAAGCCATGGCTTTGAGACTTAGAGTATATATATCTAAATTTTAATTTGTTAAAGAGATTTAAGATTAAAATGCTATGCAGTGGCTTTCTATAGTAATTTTCCTCTATTTTCACTATT-TTGAAGGAAATTAATATGAAGAAGTAACTGAA-ACAGTTACGGGGAAGAGATGCTAAAGAATGTGATTATAATAATGTATCATCCAATCATCAATATGATTGTTTTACCTATATATAAAGTACCCTGGATAACAAAGTTACTTAGGGAAAAGTAACTTTCAGTCTAATGACTGAAAATGCAGACATATCTTTAGGAAAATTTCATTTCTACCAAGGAGAAATGTCAACATTATGTA-----------------------------------
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=2356062.000000
s hg38.chr21_GL383579v2_alt    112158 249 +    201197 GGTTTTTTCCATG------TAGCAGCTCAAGATATT---AGAAAGC--AAAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAATAAAAGAACACTATCAAGTTTGAATTAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAAGCAAATCTTGAATGTATACCTAGTAGATACATCAT-GATGC----GTT----------TTTTCTTTTAGAACTATTCTTTTAT-----GTTTTTTTCTTTCCATTTCCACG
s panTro5.chr21               8730606 249 +  33445071 GTTTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT--AAAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAATAAAAGAACACTATCAAGTTTGAATTAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAAGCAAATCTTGAATGTATACCTAGTAGATACATCAT-GATGC----GTT----------TTTTCTTTTAGAACTATTCTTTTAT-----GTTTTTTTCTTTCCATTTCCACG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22269723 249 +  46275980 GGTTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT--AAAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAATAAAAGAACACTATCAAGTTTGAATTAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAAGCAAATCTTGAATGTATACCTAGTAGATACATCAT-GATGC----GTT----------TTTTCTTTTAGAACTATTCTTTTAT-----GTTTTTTTCTTTCCATTTCCACG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252298 252 -  13858734 GGTTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT--AAAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAATAAAAGAACACTATCAAGTTTGAATTAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAAGCAAATCTTGAATGTAAACTTAGTAGATACATCAT-GATGC-ATTGTT----------TTTTCTTTTAGAACTATTCTTTTAT-----GTTTTTTTCTTTCCATTTCCACG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276306 253 +  32716333 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT-GAAAAAAACAAGATTACCAAAGGATAAAGAAGGGGAAATT-AATAAGAGAACACTATCAAGTTTGAATTAAATTCAACACCTATTTAGGTAAGTTACCAGAGAGCTCGG---TTTTAAGAATCAAGGAAATCTTGAATGTATACCTAGCAGATACATCGC-GATGCTGTTGTT----------TTTTCTTTTAGAACTATTCTTTTAT-----GTTTTTTTCTTTCCATTTCCACG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160689737 256 - 185818997 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT---AAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAGTAAAAGAACACTATCAAGTTTGAATGAAATTCAACACCTTTTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAA-CAAATCTTGAATGTATACCTAGTAGATACATCAT-AATGCTATTGTT----------CTTTCTTTTAGAACTATTCTTTTATGGGTTTTTTTTTTCTTTCTATTTCCACG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324373 255 - 192294377 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT---AAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAGTAAAAGAACACTATCAAGTTTGAATGAAATTCAACACCTTTTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAA-CAAATCTTGAATGTATACCTAGTAGATACATCAT-AATGCTATTGTT----------CTTTCTTTTAGAACTATTCTTTTATGGG-TTTTTTTTTCTTTCTATTTCCACG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948191 255 -  30496662 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT---AAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAGTAAAAGAACACTATCAAGTTTGAATGAAATTCAACACCTTTTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAA-CAAATCTTGAATGTATACCTAGTAGATACATCAT-AATGCTATTGTT----------CTTTCTTTTAGAACTATTCTTTTATGGG-TTTTTTTTTCTTTCTATTTCCACG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13472857 254 +  21915920 GGCTTTTTCCATG------AAGCAGCTCAAGATACT---AGAAAGT---AAAAAACAAGATTACCAAAGGATAAAGAATGGGAAATTAAGTAAAAGAACACTATCAAGTTTGAATGAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAA-CAAATCTTGAATGTATACCTAGTAGATACATCAT-AATGCTGTTGTT----------TTTTCTTTTAGAACTATTGTTTTATGGG--TTTTTTTTCTTTCTATTTCCATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19973932 253 -  90373283 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT---AAAAAATAAGATTACCAAAGGATAAAGAATGGGAAATTAAGTAAAAGAACACTATCAAGTTTGAATGAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTTAAGAATCAA-CAAATCTTGAATGTATACCTAGTAGATACATCAT-AATACTGTTGTT----------TTTTCTTTTAGAACTATTGTTTTAT-GG--TTTTTTTTCTTTCTATTTCCATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478196 254 +   7543664 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT---AAAAAACAAGGTTACCAAAGGATAAAGAATGGGAAATTAAGTAAAATAACACTATCAGGTTTGAATGAAATTCAACACCTATTTAGGTGAGTTACCAGAGAGCTCAG---TTTCAAGAATCAA-CAAATCTTGAATGTATACCTAGTAGATACATCAT-AATGCTGTTGTT----------TTTTCTTTTAGAACTATTGTTTTATGGG--TTTTTTTTCTTTCTATTTCCATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249106 252 -  13750039 GGCTTTTTCCATG------AAGCAGCTCAAGATATT---AGAAAGT---AAAAAACAAGATTACCAAAGGATAAAGAATAGGAAATTAAGTAAAAGAACACCATCAAGTTTGAATGAAATTCAACACCTGTTTAGGTGAGTTGTCAGAGAGCTCAG---TTTTAAGAATCAA-CAAATCTTGAATGTATACCTAGCAGATACATCATAAATGCTGTTGTT----------TTTTCTTTTAGAACTATTATTTTAT-----GTTTTTTTCTTTCCATTTCCATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26508748 254 +  50472720 GGCTTTTTCTGTG------AAGCAGCTGAAGATATT---AGAAAGT---AAAAAGCAAGATTACCAAAGGGTAAAAAATGGGAAATTTAAAAAAAGAACATTATTAAGTTTGAATGAAACTCAACACCTATTTAGATGAGTGACCAGAGAACTCAG---TTTTAAGAATCAAACAAGTCTTGAATGTATCTCTAGTAGATACATCAT-GATACTGTTCTT----------TTTTCATTCAGAACTATTCTTTTAT-GA--TTTTTTTTCTTTCCAATTCCATG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933471 249 -  14377064 GGCTTTTTCTATG------AAGC-GCTGAAGATATT---AGAAAAT---AAAAAACAAGATTACCAAAGGATAAAGAATGAGAAATTTAAAAAAGGAACATTATCAAGTTTGAATGAAATTCAACATCTATTTAGATGAGTGACCAGAGAACTCAG---TTTTAAGAATCAAGGAAGTCTTGAATGTATCTCTCGTAGAAACATCAT-GATGCTGTTCTT----------TGTTCATTCAGAACTATTAT----G-AA--TTTTTTTTCTTTCCAATTCCATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158450 254 -   9889416 GGCTTTTTCCGTG------AAGCAACTGAAGATATT---AGAAAGT---AAAAAACAAGATTACCAAAAGATAAGGAATGGGAAATTTAAAAAAAGAACATTATCAAGTTTGAATGAAATTCAACACCTATTTAGATGAGTGACCAGAGAACTCAG---TTTTAAGAATCAAGCAAGTCTTGAATGTATCTCTAGTAGATACAACAT-GATGCTGTTCTT----------TTTTCATTCAAAACTATTCTTTTAT-GA--ATTTTTTTCTTTCCAATTCCATG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24874265 259 -  38779656 GACTTTTTCCATA------AAGCATCCCTAGAAATGAAAAAAAAGT---TAAGAACAAGATTTCTAAAGGGTGAAGATCAGGAAATAAAGAAAAAAGACACTACCAAGTTTAAGTGAAATTCAACCCCTATTTAAATGACGGACCAGAGAGCTCAAAGTTTTAAAGAATAAGACAATTCTTGCAGATACCCCT-GTGGATACATCAT-CATGCTGTTCTT----------TTGTGTTTCCTCACTGCTCTTTTAG-GA--CATTTTCTCTCTGAAATTCCAAA
i otoGar3.GL873528          I 4 I 1
s canFam3.chr31              18053133 249 +  39895921 GACTTTATCCATAATCTATAAAGGGCCCAAGTAATG---AAACAGG---AAAGAGAAAGGTCACTAAAAGGGAAAGAATGAGAAATAAAGAAAAAACACTCTATCAAAATTGAAAGAAGCTAAACACCTATTTTCATG--TAACCAGAGACCCCAGATTTTTTAGGAAATAA-----CCTGGAATATGCCTTTAATGAATGCAGGCT-G--------TTC----------TTGTTTTTCAGCACTATCTCTTTAAAGA--AATTTCTCTTCTCCAATTCCATG
i canFam3.chr31             I 3 C 0
s dasNov3.JH578070            2369290 271 +   3081153 -----TTTCCATGTTCTATAAGCACCTTGAAATAGG---ACACAGAAAAGAAAAACAGTACTATGAAGAGTCGAAGAGTGGGGAAGAATGAGAAAGGATAATATCCAAGGTGATGGAAATACAATAGATATTTAACTGACTGAGGCGAAAGCTCAGTAATTTAAAGAATAAAACAAATGCAGATTATACCCTTAGCAAAAACAAGAT-CATTCTGTTGTTGTTGTACTTATGTCTTTTCTGTACCATTCTTTTGG-GA--CATTTCTCCTCTCCAATTCCGTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23705658 258 +  47401472 I
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=617699.000000
s hg38.chr21_GL383579v2_alt    112407 49 +    201197 TGATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTTCACCCAACCC
s panTro5.chr21               8730855 49 +  33445071 TGATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTTCACCCAACCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22269972 49 +  46275980 TGATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTTCACCCAACCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252550 49 -  13858734 TGATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTTCACCCAACCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276559 49 +  32716333 TGATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTTCACCCAACCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160689993 49 - 185818997 TGATTTGTTTGAAACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324628 49 - 192294377 TGATTTGTTTGAAACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948446 49 -  30496662 TGATTTGTTTGAAACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473111 49 +  21915920 TGATTTGTTTGAGACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974185 49 -  90373283 TGATTTGTTTGAGACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478450 49 +   7543664 TGATTTGTTTGAGACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249358 49 -  13750039 TGATTTCTTTGACACAGTCAGTGAGGACGCCACACCCTTCACCCAACCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509002 49 +  50472720 ATATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTCGACCCAACCC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933720 49 -  14377064 TTATTTGTTTGAGACAGTCAGTGAGGACACCACACCCTTGACCCAACCC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158704 49 -   9889416 TTATTTGTTTGAGACAGTCAGCAAGGACACCGCACCCTTAACCCAACCC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23705916 49 +  47401472 TGATTTGTTTCAGACAGTCAATGAGGATGTCACACCCTTCTCTCAACCC
i micMur3.chr31             I 258 I 894
s otoGar3.GL873528           24874525 49 -  38779656 TGATTTGTCTGAGACAGTCAGTGAGGGCATCACATCCCTCTCTCCACCC
i otoGar3.GL873528          I 1 I 2
s canFam3.chr31              18053382 46 +  39895921 TGATTTGTTTGAGACAATCAATCAGGCCATCACACCATT---CTAACTC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2369561 48 +   3081153 CAATCACTTTGAGGCAGTCAATTAGGACATTG-ACACTTTCTCCAACTT
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8690652  0 +  13128814 C

a score=2006245.000000
s hg38.chr21_GL383579v2_alt    112456 214 +    201197 CAATACACACATAGTAACAGAAGAG-GCGTATTTGCCA-G--TTTTCCATAATGTCCATGATGGGCCAATGGGAATTTTTTACTTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTATTTTTAAGTGACCTGATCAGTGAATGTGTTTCAAAAAAAGCTTTGATAAGCCCTT------ATGCTTTAT--GTTATTAGTTGTATATTTGCAAT
s panTro5.chr21               8730904 214 +  33445071 CAATACACACATAGTAACAGAAGAG-GCATATTTGCCA-G--TTTTCCATAATGTCCATGATGGGCCAATGGGAATTTTTTACTTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTATTTTTAAGTGACCTGATCAGTGAATGTGTTTCAAAAAAAGCTTTGATAAGCCCTT------ATGCTTTAT--GTTATTAGTTGTATATTTGCAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270021 214 +  46275980 CAATACACACATAGTAACAGAAGAG-GCGTATTTGCCA-G--TTTTCCATAATGTCCATGATGGGCCAATGGGAATTTTTTACTTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTATTTTTAAGTGACCTGATCAGTGAATGTGTTTCAAAAAAAGCTTTGATAAGCCCTT------ATGCTTTAT--GTTATTAGTTGTATATTTGCAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252599 214 -  13858734 CAGTACATACATAGTAACAGAAGAG-GCGTGTTTGCCA-G--TTTTCCATAATGTCCATGATGGGCCAATGGGACTTTTTTACTTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTATTTTTAAGTGACCTGATCAATGAATGTGTTTTAAAAAAGGCTTTGATAAGCCCTT------ATGCTTTAT--GTTATTATTTGTATATTTGCAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276608 212 +  32716333 CAATACACACATAGTAACAGAAGAC-GTGTATTTGCCA-G--TTTTCCATAATGCCCATGATGGGCCAATGGGAA--TTTTACTTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTATTTTTAAGTGACCTGATCAATGAATGTGTTTCAAAAAAGGCTTTGATAAGCCCTC------ATACTTTAT--GTTATTAGTTATATATTTGCAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690042 214 - 185818997 CAGTACACACATAGTAACAGAAGAA-GCATATTTGCCA-G--TTTTCCATAATGTCCATGATGGACCAGTGGGACTTTTTTACCTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTTTTTTAAAGTGACCTGATCAATGAATGTTTTTCAAAAAAGGCTTTGATAAGCCCTT------ATACTTTAT--GTTATTAGTTACATATTTGCAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324677 214 - 192294377 CAGTACACACATAGTAACAGAAGAA-GCGTATTTGCCA-G--TTTTCCATAATGTCCATGATGGACCAGTGGGACTTTTTTACCTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTTTTTTTAAGTGACCTGATCAATGAATGTTTTTCAAAAAAGGCTTTGATAAGCCCTT------ATACTTTAT--GTTATTAGTTACATATTTGCAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948495 214 -  30496662 CAGTACACACATAGTAACAGAAGAA-GCGTATTTGCCA-G--TTTTCCATAATGTCCATGATGGACCAGTGGGACTTTTTTACCTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTTTTTTTAAGTGACCTGATCAATGAATGTTTTTCAAAAAAGGCTTTGATAAGCCCTT------ATACTTTAT--GTTATTAGTTACATATTTGCAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473160 212 +  21915920 CAGTACACACATAGTAACAGAAGAG-GCGTATTTGCCA-G--TTTTCCATAATGTCCATGATGGACCAGTGGGACTTTTTTACCTGAGAATGAGAATTTTTAG---AAAGATACATGGAATTTTAGATGGTTATTTTTAAGTGACCTGATCAATGAATGTTTTTCAAAAAAGGCTTTGATAAGCCC-T------ACACTTTAT--GTTATTAGTTACATATTTGCAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974234 214 -  90373283 CAATACACACATAGTAACAGAAGAG-GTGTATTTGCCA-G--TTTTCCGTAATGTCCATGATGGACCAGTGGGACTTTTTTACCTGAGAATGAGAATTTTTAG--GAAAGATACATGGAATTTTAGATGGTTATTTTTAAGTGACCTGATCAATGAATGTTTTTCAAAAAAGGCTTTGATAAGCCCTT------ACACTTTAT--GTTATTAGTTACATATTTGCAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478499 213 +   7543664 CAATACACACATAGTAACAGAAGAG-GCGTATTTGCCA-G--TTTTCCATAATGTCCATGATGGACCAGTGGGACTTTTTTACCTGAGAATGAGAATTTTTAG--AAAAGATACATGGAATTTTAGATGGCTTTTTTTAAGTGACCTGATCAATGAATGTTTTTCAAAAAAGGCTTTGATAAGCCC-T------ACACTTTAT--GTTATTAGTTACATATTTGCAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249407 220 -  13750039 CAATACACACATAGTAACAGAAGAG-GCGTATTTGCCA-G--TTTTCCATAATGTCCACGATGGACCAGTAGGACTTTTTTACCTGAGAATGAGAATTTTTAG--AAAAGATATATGGAATTTTAGATGGATATTTTTAAGTGACCTCATCAATGAATGTTTTTCAAAaaaggctttgataaagcctttgataaaggctttAT--GTTATTAGTTACATATTTGCAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509051 211 +  50472720 CAATGCACA-----TAACAGGAGAG-GCATATTTGCCACG--TTTTCTAAAATGACCATAATGGACCAATGGGACGTTTTTGTTTGAGAATGAACATTTTTAG--AAAAGATACGTGGAATTTTAGATGGCTTTTTGTAAGTGACACGATCAATGAATGTGTCTCCAAACAGG-TTTGATGAGCTCTT------ATGCTTTATACGTTATTACTTATATATTTGCAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933769 213 -  14377064 CAATACACATATAGTAACAGGAGAG-GCATATTTGCCACG--TTTTCCATAATGACCATAATGGACCAATAGGACGTTTTTGCTTGGGAATGAACATTTTTAG--AAAAGATATGTGGAATTTTAGATGGC-TTTTGTAAGTGACATGATCAATGAATGTGTTTCCAAACAAGTTTTGATGAGCTC---------tactttatacattataagttatatatttgcaat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158753 216 -   9889416 CAATACACATATAGTAACAGGAGAG-GCATATTTGCCATG--TTTTCCATAATGACCATAATGTACCAATAGGACATTTTTGCTTGAGAATGAACATTTTTAG--AAAAGATATGTGGAATTTTAGATGGCTTTTTGTAAGTGACATGATCAATGAATGTGTTTCCAAACAGGTTTTGATGAGCTCTt------atac-ttatatattattagttatatatttgcaat
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24874576 200 -  38779656 AGACACGTGTATAGTAAGA----AG-TCACATTTCCTATG--TTTTTCATACTGCCTAAGAAAGGCCAATGGGCTTTTCTTTTT---------AAATTCTTAG--TAAAGATACATATAATTTCTGATAGCTATTTATAAATGACC----AAATGAAAGCATTTTAGAAAAGACTTTGATGGGCTGTT------ACATTTTACCTGTCCTTAGTTTTATATTTATGAT
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              18053428 207 +  39895921 AAATTCTCACAAAGTAACAGAAGGGCGCATGCTTGCCATG--TTTTCTACACCCTTCAAGCT-CACTGATGGGATTTTTCCACCTGA--------ATTCTGAGTTAAAATAAACATGGAACTTTGAATGGCTATTTTGAAGTGACC----CAGTGAAAGTGTTTCAAAAAAGCCTTTGATGAGCTCTT------GCATTTTCTGAGTTATTATTCATAGATCTGTAAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2369609 200 +   3081153 AAATCCTCACATAAGAACAAAAG---ACAAATTTCCTA-GATTTTTCAGTGTTGTTCA---------AATGGGACCTTTTCACCTGAGTAAAGATATTCTGAG--TAAAGATACATGGGATTGTAGTTGGGTGTTTATAAGTGAACTGA----TGAAAGTGTTCCAAAAAAGCCTATCAAGAACTCTT------GCA-TAAGT--GTTATTACTTACATATCTGTGTT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=22800.000000
s hg38.chr21_GL383579v2_alt    112670 2 +    201197 AT
s panTro5.chr21               8731118 2 +  33445071 AT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270235 2 +  46275980 AT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252813 2 -  13858734 AT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276820 2 +  32716333 AT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690256 2 - 185818997 AT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324891 2 - 192294377 AT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948709 2 -  30496662 AT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473372 2 +  21915920 AT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974448 2 -  90373283 AT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478712 2 +   7543664 AT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249627 2 -  13750039 AT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509262 2 +  50472720 AT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933982 2 -  14377064 at
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158969 2 -   9889416 at
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24874776 2 -  38779656 GT
i otoGar3.GL873528          C 0 I 384
s dasNov3.JH578070            2369809 2 +   3081153 AT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e canFam3.chr31              18053635 0 +  39895921 C
e saiBol1.JH378168            8690652 0 +  13128814 C

a score=53891.000000
s hg38.chr21_GL383579v2_alt    112672 7 +    201197 --ATATAca
s panTro5.chr21               8731120 7 +  33445071 --ATATAca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270237 7 +  46275980 --ATATAca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252815 7 -  13858734 --ATATAca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276822 7 +  32716333 --ATATACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690258 7 - 185818997 --ATATAca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324893 7 - 192294377 --ATATAca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948711 7 -  30496662 --ATATAca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473374 7 +  21915920 --ATATGca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974450 7 -  90373283 --ATATGca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478714 7 +   7543664 --ATATGca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249629 7 -  13750039 --ACATAca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509264 7 +  50472720 --ATATAca
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933984 7 -  14377064 --atataca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158971 7 -   9889416 --atataca
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2369811 7 +   3081153 AAACGTA--
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e canFam3.chr31              18053635 0 +  39895921 C
e saiBol1.JH378168            8690652 0 +  13128814 C
e otoGar3.GL873528           24874778 384 -  38779656 I

a score=87527.000000
s hg38.chr21_GL383579v2_alt    112679 12 +    201197 gtcatctgccac
s panTro5.chr21               8731127 12 +  33445071 gtcatctgccac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270244 12 +  46275980 gtcatctgccac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252822 12 -  13858734 gtcatctgccac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276829 12 +  32716333 gtcatctgccac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690265 12 - 185818997 gtcatccgtcag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324900 12 - 192294377 gtcatccgtcag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948718 12 -  30496662 gtcatccgtcag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473381 12 +  21915920 gtcatccatcag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974457 12 -  90373283 gtcatccatcag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478721 12 +   7543664 gtcatctatcag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249636 12 -  13750039 gtcatctgtcag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509271 12 +  50472720 gtcatctgccac
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13933991 12 -  14377064 gtcatctgcccc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158978 12 -   9889416 gtcatctgccac
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2369818  0 +   3081153 C
e canFam3.chr31              18053635  0 +  39895921 C
e saiBol1.JH378168            8690652  0 +  13128814 C
e otoGar3.GL873528           24874778 384 -  38779656 I

a score=856993.000000
s hg38.chr21_GL383579v2_alt    112691 101 +    201197 ataa---catttcagtcagcagtggaccttgtatacaataacggttttataagattataatactctatttttactgtgcattctctatgtttatatatgtttag
s panTro5.chr21               8731139 101 +  33445071 ataa---catttcagtcagcaatggaccttgtatacaataacggttttataagattataatactccatttttactgtgcattctctatgtttatatatgtttag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270256 101 +  46275980 ataa---catttcagtcagcaatggaccttgtatacaataacggttttataagattataatactccatttttactgtgcattctctatgtttatatatgtttag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252834 101 -  13858734 ataa---catttcagtcagcaatggaccttgtatacaataacggttttataagattataatactctatttttactgtgcattctctatgtttatatatgtttag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276841  91 +  32716333 ataa---catttcagtcaacaatggaccctgtatacaataatggttttataagattataatactctatttttactgtgcattctc----------tatgtttag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690277 101 - 185818997 atga---catttcattcaacaatggaccttgtataccataatggttttataagataataatattctatttttactctgcattctctatgtttatatatgtttgg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167324912 101 - 192294377 atga---catttcattcaacaatggaccttgtataccataatggttttataagataataatattctatttttactctgcattctctatgtttatatatgtttgg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948730 101 -  30496662 atga---catttcattcaacaatggaccttgtataccataatggttttataagataataatattctatttttactctgcattctctatgtttatatatgtttgg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473393 101 +  21915920 atga---catttcagtcaacaatggaccttgtatagcataatggttttataagataatagtattctatttttactctgcattctctatgtttatacatgtttgg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974469 101 -  90373283 atga---catttcagtcaacaatggaccttgtatagcataatggttttataagataataatattctatttttactctgcattctctatgtttatacatgtttgg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478733 101 +   7543664 atga---catttcagtcaacaatggaccttgtatagcataatggttttataagataataatattctatttttactctgcattctctatgtttatatatgtttgg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249648 101 -  13750039 atga---catttcagtcaacaatggaccttgtataccataatggttttataagataataatattctatttttactctgcattctctatgtttatacatgtttgg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509283 103 +  50472720 ataaaagcatttcagtcaacaatggcc-ctgtatacagtagtggctttatacgattataatactctatttttactgtgcattctctacgtttatatatgtttag
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13934003 104 -  14377064 ataaaaacatttcagtcaacaattgcctttgtatatagtagtggctttataagattataatactctatttttactgtgcattctctatgtttttatatgtttag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9158990 104 -   9889416 ataaaaacatttcagtcagcaatggtccttgtatacagtagtggctttataagattataatactctatttttactgtgcattctctatgtttatatatgtttag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24875162 100 -  38779656 ataa---tattttgatcaagcatggattgtatatatggcagtggttccatgatattataataacataatttta-tacaccttctttaagtttatatgtgtatat
i otoGar3.GL873528          I 384 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2369818   0 +   3081153 C
e canFam3.chr31              18053635   0 +  39895921 C
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=1613704.000000
s hg38.chr21_GL383579v2_alt    112792 195 +    201197 atacacaaatacttatcattgtgttacaactgcctatagtatttagtagaatcacatgccatacaaatttgta-acctaggagaaaaagag-tataacacatagcttggattgttgtagaccctaccatctaagtttgtgtaaggatactctgtgatattagcgcaatgataaaagtcacctaatgacgcacttctc
s panTro5.chr21               8731240 195 +  33445071 atacacaaatacttatcattgtgttacaactgcctatagtattcagtagaatcacatgccatacaaatttgta-agctaggagaaaaagag-tataacacatagcttggattgttgtagaccctaccatctaagtttgtgtaaggatactctgtgatattagcgcaatgataaaaatcacctaatgacgcacttctc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270357 195 +  46275980 atacacaaatacttatcattgtgttacaactgcctatagtattcagtagaatcacatgccatacaaatttgta-acctaggagaaaaagag-tataacacatagcttggattgttgtagaccctaccatctaagtttgtgtaaggatactctgtgatattagcgcaatgataacaatcacctaatgacgcacttctc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8252935 195 -  13858734 atacacaaatacttatcattgtgttacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaggagaaaaagag-tataacacatagcttggattgttgtagaccctaccgtctaagtttgtgtaaggatactctgtgatattagcgcaatgataaaaatcacctaatgacacacttctc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9276932 195 +  32716333 atacacaaatacgtatcattgtgttacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaggagaaaaagaa-tataactcatagcttggattgttgtaggccctaccgtgtaagtttgtgtaagtatactctgtgatattaggacaatgataaaaatcacctaatgacacacttctc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690378 195 - 185818997 atacacaaatacttatcactgcattacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tataacacatagcttggattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatactagcacaatgataaaaatcacctcatgagacacttctc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325013 195 - 192294377 atacacaaatacttatcactgcattacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tataacacatagcttggattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatattagcacaatgataaaaatcacctcatgagacacttctc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4948831 195 -  30496662 atacacaaatacttatcactgcattacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tataacacatagcttggattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatattagcacaatgataaaaatcacctcatgagacacttctc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473494 195 +  21915920 atacacaaatacttatcactgtgttacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tataacacatagcttggattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatattagcacaacgataaaaatcacctcatgagacacttctc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974570 195 -  90373283 atacataaatacttatcactgtgttacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tataacacatagctttgattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatattagcacaatgataaaaatcacctcatgagacacttctc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3478834 195 +   7543664 atacacaaatacttatcactgcgttacaactgcctatagtattcagtagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tataacacatagcttggattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatattagcacaacgataaaaatcacctcatgagacacttctc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249749 195 -  13750039 atacacaaatacttatcactgtgttacagctgcctatagtattcagcagaatcacatgccatacagatttgta-acctaaaagaaaaggaa-tgtaacacatagcttggattgttgtaggccctaccatctaagtttgtgtaagtatactctgtgatattagcacaatgataaaaatcacctcataagacacttctc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509386 180 +  50472720 atatacaaacacttatcattgtgttacaactgcctatagtattcaatagaatcacatgccacacagatttgta-aactagaataaaaagaactgtaacatatagcttggattgttgtaggctctaccatctaagtttctg----------------tatttgcacaatgataaaaataatataatgacacactttgc
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13934107 180 -  14377064 atatacaaacacttatcattgtgttacaactgtctataatattcaatagaatcacatgcaatacagatttgta-aactagaataaaaagaactgtaacacatagcttgaactgttgtaggctctaccatctaagtttgcg----------------tatttgcacaatgataaaaatcatctaataacacactttgc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159094 180 -   9889416 atatacaaacacttatcattgcattacagctgcctatagtattcaatagaatcacatgccatacagatttgta-aaccagaataaaaagaactgtaacacatagcttggattgctgtagactgtaccatctaagtttgtg----------------tatttgcacaatgataaaaatcatctaatgacacactttgc
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24875262 189 -  38779656 atacacaaatacttaccatcatgttataattgtctgtaatattcagtacagtaacatgctgtacag---tacacaactagtatccataagt-catgctatatacccatggtaacaggag-ctgtaccatctagattagtgtaagtacactctgagatct--gcacaatgacaa-aattgcttaatgacacacttcCA
i otoGar3.GL873528          C 0 I 255
s canFam3.chr31              18053635  72 +  39895921 ATACACAGATACATAC----------------------ATATTC-----------------------TTTCCA-A--------------AA---------------------GTTATTAACCTCGTTATTTTATCCTGTGGAAAGCTATTGTA--------------------------------------------
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2369818   0 +   3081153 C
e saiBol1.JH378168            8690652   0 +  13128814 C

a score=227562.000000
s hg38.chr21_GL383579v2_alt    112987 30 +    201197 agagtctattctgtttttaagtgacacatc
s panTro5.chr21               8731435 30 +  33445071 agagtctattctgtttttaagtgacacatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270552 30 +  46275980 agagtctattctgtttttaagtgacacatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253130 30 -  13858734 agagtctattctgtttttaagtgacacatc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277127 28 +  32716333 agtg--tattctatttttaagtgacacatc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690573 30 - 185818997 agagtgtattctgtttttaagtgagacatc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325208 30 - 192294377 agagtgtattctgtttttaagtgagacatc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949026 30 -  30496662 agagtgtattctgtttttaagtgagacatc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473689 30 +  21915920 agagtgtattctatttttaagtgagacatc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974765 30 -  90373283 agagtgtattctatttttaagtaacacatc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479029 30 +   7543664 agagtgtattctatttttaagtgagacatc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249944 30 -  13750039 agagtgtattttatttttaagtgacacatc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509566 28 +  50472720 --agtgtattccattcttacgtgacacatg
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13934287 30 -  14377064 agagtgtattccattcttaagtgacacatg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159274 30 -   9889416 agagtgtattccattcttaagtgacacgtg
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2369818  0 +   3081153 C
e canFam3.chr31              18053707  0 +  39895921 C
e saiBol1.JH378168            8690652  0 +  13128814 C
e otoGar3.GL873528           24875451 255 -  38779656 I

a score=22920.000000
s hg38.chr21_GL383579v2_alt    113017 2 +    201197 ac
s panTro5.chr21               8731465 2 +  33445071 ac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270582 2 +  46275980 ac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253160 2 -  13858734 ac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277155 2 +  32716333 ac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690603 2 - 185818997 ac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325238 2 - 192294377 ac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949056 2 -  30496662 ac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473719 2 +  21915920 ac
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974795 2 -  90373283 ac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479059 2 +   7543664 ac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249974 2 -  13750039 ac
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509594 2 +  50472720 ac
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690652 2 +  13128814 AC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934317 2 -  14377064 ac
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159304 2 -   9889416 ac
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2369818 0 +   3081153 C
e canFam3.chr31              18053707 0 +  39895921 C
e otoGar3.GL873528           24875451 255 -  38779656 I

a score=369936.000000
s hg38.chr21_GL383579v2_alt    113019 33 +    201197 tgTACATATATTCTTTTTAATGATTATTAATTT
s panTro5.chr21               8731467 33 +  33445071 tgTACATATATTCTTTTTAATGATTATTAATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270584 33 +  46275980 tgTACATATATTCTTTTTAATGATTATTAATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253162 33 -  13858734 tgTACATATATTCTTTTTAATGATTATTAATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277157 32 +  32716333 tgTACATATGTT-TTTTTAATGATTATTAATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690605 33 - 185818997 tgTACATATATTCTTTTTAATGGTTATTAATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325240 33 - 192294377 tgTACATATATTCTTTTTAATGGTTATTAATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949058 33 -  30496662 tgTACATATATTCTTTTTAATGGTTATTAATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473721 33 +  21915920 tgTACATATATTCTTTTTAATGGTTGTTAATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974797 33 -  90373283 tgTACATATATTCTTTTTAATGGTTATTAATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479061 33 +   7543664 tgTACATATATTCTTTTTAATGGTTATTAATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5249976 33 -  13750039 tgTACATATATTCTTTTTAATGGTTATTAATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509596 33 +  50472720 tgTACATATATTCTTTTTAATGGTTATTAATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690654 33 +  13128814 TGTACATATATTCTTTTTAATGGTTATTAATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934319 33 -  14377064 tgtacatatattctttttaATGGTTATTCATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159306 33 -   9889416 tgTACATATATTCTTTTTAATGGTTATTAATTT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18053707 17 +  39895921 -----------TCTTTCTAATAATGACT-----
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2369818 33 +   3081153 TGCATTTATATTCTTTCCAATAGCTATTACTCT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e otoGar3.GL873528           24875451 255 -  38779656 I

a score=3128679.000000
s hg38.chr21_GL383579v2_alt    113052 290 +    201197 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTGCTCACTCTTTCA-----CTAGAGCT----TCCTGAAAGCTGGTTCCATTTTCCAAAGTCAGATAACATTATCTAATAGAGGATATGATATAAATGTTGCCAGAAATTTGTCCAGAAGGACAAATTTAAGAATGTTAAATATTTCATGCAGTTCTTGTGAGTAAGT------------------TACTATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAATTGCATTCAAATGA
s panTro5.chr21               8731500 290 +  33445071 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTGCTCACTCTTTCA-----CTAGAGCT----TCCTGAAAGCTGGTTCCATTTTCCAAAGTCAGATAACATTATCTAATAGAGGATATGATATAAATGTTGCCAGAAATTTGTCCAGAAGGACAAATTTAAGAATGTTAAATATTTCATGCAGTTCTTGTGAGTAAGT------------------TACTATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAGTTGCATTCAAATGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270617 290 +  46275980 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTGCTCACTCTTTCA-----CTAGAGCT----TCCTGAAAGCTGGTTCCATTTTCCAAAGTCAGATAACATTATCTAATAGAGGATATGATATAAATGTTGCCAGAAATTTGTCCAGAAGGACAAATTTAAGAATGTTAAATATTTCATGCAGTTCTTGTGAGTAAGT------------------TACTATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAGTTGCATTCAAATGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253195 290 -  13858734 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTGCTCACTCTTTTA-----CTAGAACT----TCCTGAAAGCTGGTTCTATTTTCCAAAGTCAGATAACGTTATCTAATAGAGGATATGATATAAATGTTGCCGGAAATTTGTCCAGAAGGACAAATTTAAGAATGTTAAATATTTCATGCAGTTCTTGTGAGTAAGG------------------TACTATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAATTGCATTCAAATGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277189 286 +  32716333 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTATTTTAATAACTGCTTACTCTTTTA-----CTAGAACC----TCCTAAAAGCTGGTTCTATTTTCCAAAGTCAGATAACATTATCTAATAGAGGATATGATATAAATGTTGCCAGAAA----TCCAGAAGGACAAATTTAACAATGTTAAATATTTCATGCAGTTCTTGTGAGTAAGG------------------TACTATGGACAATATACTACCATATAGAGACTCACAAAAATTATAGGTTAAGATCGAACATGAGATGAC--AGTCAATTGCATTCAAATGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690638 282 - 185818997 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTAGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACCTTATCTAATGGAGGATACAATATAAATGTTGCCAGAAA----TCCAGAAGAACAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATATAGAT----ACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAATTGCATTCAAATCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325273 286 - 192294377 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTAGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACCTTATCTAATGGAGGATACAATATAAATGTTGCCAGAAA----TCCAGAAGAACAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAATTGCATTCAAATCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949091 286 -  30496662 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTAGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACCTTATCTAATGGAGGATACAATATAAATGTTGCCAGAAA----TCCAGAAGAACAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAATTGCATTCAAATCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13473754 286 +  21915920 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTAGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACCTTATCTAATGGAGGATACAATATAAATGTTGCCAGAAA----TCCAGAAGAACAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAAATCAAACATGAGATGAC--AGTCAATTGCATTCAAATCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19974830 286 -  90373283 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTAGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACCTTATCTAATAGAGGATACGATATAAATGTTGCCAGAAA----TCCAGAAGAACAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATACAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AATCAACTGCATTCAAATCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479094 286 +   7543664 CTCAATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTAGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACCTTATCTAATGGAGGATACAATATAAATGTTGCCAGAAA----TCCAGAAGAACAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGATGAC--AGTCAATTGCATTCAAATCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250009 286 -  13750039 CTCCATTTGGACCCATGAAA------------------------AACTATT-------------------ATATTCTTTTAATAACTTCTCACTCTTTTA-----CTTGAACT----TCCTAAAAGGTGGTTCTATTTTCCAAAGTCAGATAACTTTATCTAATAGAGGATACGATATAAATGTTGCCAGAAA----TCCAGAAGGAAAAATTTAAGAATGTGAAATATTTCATGCAGTTCTTGTGAATAAGG------------------TACCATGGACAATATACTACCATATAGATACTCACAAAAATTATAGGTTAAGATCAAACATGAGCTGAT--AGTCAACTGCATTCAAATGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509629 284 +  50472720 CTTAATTTGGACCCATGAAA------------------------AACTATT-------------------ATTTTCTTCTAATAACTGCTCACTCTTTTA-----CTAGATCT----TCATAAAAGCTGATTCTACTTTTCAAAGTCAGATAACCTTATCTGATAAAGGATATAATATAAATGGTGCCAGAAA----TGCAGAAGGATAAATTTAAGAATATTAAATGTTTCATGAAGTTCTTGTGAGTAATG------------------TTCTGTGAGAAATATATTACCATATAGATACT-AC-AATATCATAGGTTAAGTTCAAACGTGAGATGAC--AGTTAAGTGCATTCAACCGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690687 284 +  13128814 CTTAATTTGGACTCATGAAA------------------------AACTATT-------------------GTTTTCTTCTAATAACTGCTCACTCTTTTA-----CTAGATCT----TCGTAAAAGCTGGTTCTACTTTCCAAAGTCAGATAACCTTATCTAATAAAGGATATAATATAAATGGTGCCAGAAA----TGCAGAAGGACAAATTTAAGAATGTTAAATCTTTCACGAAGTTCTTGTGAGTAATG------------------TTCTGTGGGCAATATATTACCATATAGATACT-AC-AATATCATAGGTTAAGTTCAAATGTGAGATGAC--AGTTAAGGGCATTCAACCGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934352 284 -  14377064 CTTAATTTGGACCCATGAAA------------------------AACTATT-------------------ATGTTCTTCTAATAACTGCTCACTCTTTTA-----CTAGAGCT----TCGTAAAAGCTGGTTCTACTTTCCAAAGTCAGGAAACCTTATCTAATAAAGGATATAATATAAATGGTGCCAGAAA----TGCAGAAGGACAAATTTAAGAATGTTAAATCTTTCATGAAGTTCTTGTGAGTAATG------------------CCCTGTGGGCAATATTTTATCATATAGATACT-AC-AATATCATAGGTTAAGTTCAAACATGAGATGAC--AGTTAAGTGCATTCAACCAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159339 285 -   9889416 CTTAATTTGGACCCATGAAA------------------------AACTATT-------------------ATTTTCTTCTAATAACTGCTCACTCTTTTA-----CTAGATCT----TCGTAAAAGCTGGTTCTACTTTCCAAAGTCAGATAACCTTATCTAATAAAGGATATAATATAAATGGTGCCAGAAA----TGCAGAAGGACAAATTTAAGAATGTTAACTCTTTAATGAAGTTCTTGTGAGTAATG------------------TTCTATCAGCAATATGCTACCATATAGATACTCAC-AATATAATAGGTTAAGATCAAACATGAGATGAC--ATTTAAGTGCATTCAACTGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24875706 324 -  38779656 ctgaatttgaacccactaccttaggtgtatgtggctggtgccttagctacttgagccataggtgccaagccTATTCTTCTAAGAACTGTTTGTATTTTTGTATTTTTAGAATT----TTCCAAACGTTAGTTCTATTGTTCAAAGTCATATAACCTTATCTAACAGAGGATCTGATATAAACGTTAACAGAAA----TGCAGAAGGACGAACTTAAGAATA------AGTTCATGACGTTCTTATAAATAGTA------------------TACTATGGGAAACACGTTACTATGTAGATACCCACTAAAAT----AGTTTAAACCACATAAGATAGGAT--ACTTTCTTTCATGCAAATAA
i otoGar3.GL873528          I 255 C 0
s canFam3.chr31              18053724 258 +  39895921 -----------------------------------------------------------------------TATTGTTTT--------------CTTTTA-----TTAGGATT----TCCTATAGACTAGTTCTATTGTTCAAAA-CAAATAATATTATTTAATAGAGGACATGATAC-AATGCTGCCAGAAA----CCCAGAAAGGCAAACTT-AGAGTGTTAAATCTTTCATGCATTTCTTGTGAATAGTGAATACTATTTCTTGTGAATACTATGGACAATATATTTCTATGTAGATACTCGC-AAAATCATAGTTTAAGATCAAATATGAGAAGAT--AGTTGATTGCTTACAAATGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2369851 280 +   3081153 CTTTTTATGAACCAGTGAAT------------------------AACTATT-------------------AGAGCCTTCTGGTACCTGCTTATTGTTTT------CTTCAGCTCAAATGCCACAAACTAGTTCTGTATT-CAAAACAAAATAAACTTACCTGATAGAGGACATGAAATAAATGTTGCCAG-------GTCAGGAGAATTTTCTTTTG-TTGTTAAACATTTCATGCAATTCTCATGAATAATG------------------TATTACAGACACTATACTGCTATACAGATAGC-AC-----TCATAGTTTAAAACCAAATGTGACATAACTTACTTTGTTGCATGTGCATGA
i dasNov3.JH578070          C 0 I 21254
e micMur3.chr31              23705965 894 +  47401472 I

a score=42794.000000
s hg38.chr21_GL383579v2_alt    113342 9 +    201197 TTacacaca
s panTro5.chr21               8731790 9 +  33445071 TTacacaca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270907 9 +  46275980 TTacacaca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253485 9 -  13858734 TTacacaca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277475 2 +  32716333 TT-------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690920 9 - 185818997 TTacacaca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325559 9 - 192294377 TTacacaca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949377 9 -  30496662 TTacacaca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474040 9 +  21915920 TTacacaca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975116 5 -  90373283 TTaca----
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479380 5 +   7543664 TTaca----
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250295 2 -  13750039 Ta-------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509913 9 +  50472720 Tcacacaca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690971 9 +  13128814 Tcacacaca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934636 9 -  14377064 Tcacacaca
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159624 9 -   9889416 TTacacaca
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876030 9 -  38779656 TTGAATATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18053982 9 +  39895921 TTACATATA
i canFam3.chr31             C 0 I 6
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2370131 21254 +   3081153 I

a score=272545.000000
s hg38.chr21_GL383579v2_alt    113351 45 +    201197 ca------cacag--acacacacacacacacacacaTATATATATAATACTGA
s panTro5.chr21               8731799 47 +  33445071 ca------cagagacacacacacacacacacacacaTATATATATAATACTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270916 47 +  46275980 ca------cagagacacacacacacacacacacacaTATATATATAATACTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253494 47 -  13858734 ca------cagacacacacacacacacacacacacacaTATATATAATATTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277477 34 +  32716333 -------------------acacacacacacacacacaTATATAAAATATTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690929 49 - 185818997 caca----cacacacacacacacacacacacaTATATATATATAAAATATTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325568 53 - 192294377 cacacacgcacacacacacacacacacacacacaTATATATATAAAATATTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949386 53 -  30496662 cacacacacacacacacacacacacacacacacaTATATATATAAAATATTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474049 47 +  21915920 ca------cacacacacacacacacacacaTACATATATATAAAAAATATTGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975121 45 -  90373283 --------cacacacacacacacacacacacacaTATATATACAAAATATTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479385 45 +   7543664 --------cacacacacacacacacacacacacaTATATATAAAAAATATTGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250297 45 -  13750039 --------cacacacacacacacacacacacacacaTATATATAAAATATTGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509922 33 +  50472720 caca----cacacacacacacacacaca----------------cacTATGGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8690980 49 +  13128814 caca----cacacacacacacacacacacacgcatacacgcacgcacTATGTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934645 45 -  14377064 caca----cacacacacacacacacaca----cacacacacacacacTATGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159633 49 -   9889416 caga----cacacacacacacacacacacagacacacagacacacaGTATGGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876039  5 -  38779656 TTTT----T--------------------------------------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23705965 894 +  47401472 I
e dasNov3.JH578070            2370131 21254 +   3081153 I
e canFam3.chr31              18053991  6 +  39895921 I

a score=2210182.000000
s hg38.chr21_GL383579v2_alt    113396 198 +    201197 TTCATGAA---------AATAAATATCTCACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTGT-CAGTGGAGACCTTTGCTGTAATATGAACATTTA-GATAAATTGGCAAAGATTTACAAAATCTTCTACTACTGTCAACTTGCTCATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
s panTro5.chr21               8731846 198 +  33445071 TTCATGAA---------AATAAATATCTCACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTGT-CAGTGGAGACCTTTGCTGTAATATGAACATTTA-GATAAATTGGCAAAGATTTACAAAATCTTCTACTACTGTCAACTTGCTCATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22270963 198 +  46275980 TTCATGAA---------AATAAATATCTCACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTGT-CAGTGGAGACCTTTGCTGTAATATGAACATTTA-GATAAATTGGCAAAGATTTACAAAATCTTCTACTACTGTCAACTTGCTCATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253541 198 -  13858734 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTAAAAAGGAATTTGT-CAGTGGAGACCTTTGCTGTAATATGAACATTTA-GATAAATTGTCAAAGATTTACAAAATCTTCTACTACTGTCAACTTGCTCATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277511 207 +  32716333 TTCATGAAAATAAATATAATAAATATCTTACTTTATTGTAAGAATGAGAATATAGCCGTGTGTCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGAGACCTTTGCTGTAATATGAACATTTA-GATAAATTGGCAAAGATTTACAAAATCTTCTACTATTGTCAACTTGCTCATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160690978 195 - 185818997 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACACTTGCTGTGATGTGAACATTTA-GATAAATTGTCCAAGATTTACAAAA---TCTACTGCTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325621 195 - 192294377 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATAAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACACTTGCTGTGATGTGAACATTTA-GATAACTTGTCCAAGATTTACAAAA---TCTACTGCTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949439 195 -  30496662 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACACTTGCTGTGATGTGAACATTTA-GATAAATTGTCCAAGATTTACAAAA---TCTACTGCTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474096 195 +  21915920 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACACTTGCTGTGATGTGAACATTTA-GATAAATTGTCCAAGATTTATAAAA---TCTACTACTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975166 195 -  90373283 TTCATGAA---------AATAGATATCTTACTTTATTATAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACACTTGCTGTGATGTGAACATTTA-GATAAATTGTCCAAGATTTACAAAA---TCTACTACTGTCAATTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479430 195 +   7543664 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATGAGAATATAGCCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACACTTGCTGTGATGTGAACATTTA-GATAAATTGTCCAAGATTTATAAAA---TCTACTACTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250342 194 -  13750039 TTCATGAA---------AATAAATATCTTACTTTATTGTAAGAATGAGAATATAACCATGTGGCAAAATAGGAATTGAAAAGGAATTTAT-CAGTGGGGACAC-TGCTGTGATGTGAACATTTA-GATAAACTGTCGAAGATTTATAAAA---TCTACTACTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26509955 199 +  50472720 TTCATTAA---------AATAATTGTCTTACTTTATGATAAGAATGAGAATGTGGCCATGTGGCAAAGTGGGAATTGAAAAGGAATTTTTCCAGTGGAGACATTTGCTGTAATATGAACATTTG-GATAAATTGGCGAAGATTTATGAAGTCTTCTACTACTGTCTACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGTGTATCTCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691029 199 +  13128814 TTCATTAA---------AATTATTGTCTTACTTTATTATAAGAATGAGAATATGGCCATGTGGCAAAGTGGTAATTGAAAAGGAATGTGTCCAGTGGAGACATTTGCTGTAATATGAGCATTGG-GATAAATTGGCAAATATTTACAAAATCTTCTACTACTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934690 199 -  14377064 TTCATTAA---------AATAATTGTCTTACTTTATTATAAGAATGAGAATATGGCCATGTGGCAAAGTGGGAATTGAAAAGGAACTTATCCAGTGGAGACATTTGCTGTAATATGAACATTTA-GATAAATTGGCAAAGATTTACAAAGTCTTCTACTACTGCCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATATCTCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159682 196 -   9889416 TTCATGAA---------AATAATTGTCTTACTTTATTATAAGAATGAGACTATGGCCATGTGGCAAAGTGAGAATTGAAAAGGAATTTATCCAGTGGAGACATTTGCTGTAATATCAACATTTG-GATAAATTGGCAAAGATTTATATAGTCTT---CTGCTGTCAACTTGCTTATGCTAGATGACTCTTTCCTAGGTAGCATAACTCA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23706859 197 +  47401472 TTCAAGAA---------AATAAACATCTTATTTTCCTTTAAGAATGAGAGTATAGCCATGTAACAAAGTGGGAATTGGAAAGGAACTTAT-CAGTGAAAACATTTGCAGGAATCTGAATAATT--AAGGAAGTTGGAAAGATTTTCAAAGCCTTGTGCTACTGCCAGCTTGTTTATCCTAGATGATTCTTTCCAAGGTAGCATATCTCA
i micMur3.chr31             I 894 I 153
s otoGar3.GL873528           24876044 197 -  38779656 TTCAAGAA---------AATAAACATCTTATTTTCCTTAAAGAATGAGAAGATAGTCGTATAACAAAGTAGGAATTGGAAAGGAACTTAT-CAGTG-AAGCATTTGTTGGAATCTGAACAATTAGAAGAAACTGGTAAGGACTTTCAAGGCCTTGTACTAC-GCCAGCTTGTTTATCCTGTATAATTTTTTCCAAGGTAGCCTATATCA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2370131 21254 +   3081153 I
e canFam3.chr31              18053991   6 +  39895921 I

a score=1401268.000000
s hg38.chr21_GL383579v2_alt    113594 147 +    201197 TCTAAACAAATTCAAAC---------------------------ATTTGTAGTTGAGTTAAACAAAATATATTTGAGCACATTTTCTGTTGAAATGTTAATTCATAGAGTAAAACATTAATTTACAATTTGGAAGAATTGCAAGTAGAAAATCATGTTATAAATGTATTGAATC
s panTro5.chr21               8732044 147 +  33445071 TCTAAACAAATTCAAAC---------------------------ATTTGTAGTTGAGTTAAATAAAATACATTTGAGCACATTTTCTGTTGAAATGTTAATTTATACAGTAAAACATTAATTTACAATTTGGAAGAATTGCAAGTAGAAAATCATGTTATAAATGTATTGAATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271161 147 +  46275980 TCTAAACAAATTCAAAC---------------------------ATTTGTAGTTGAGTTAAATAAAATACATTTGAGCACATTTTCTGTTGAAATGTTAATTTATACAGTAAAACATTAATTTACAATTTGGAAGAAATGCAAGTAGAAAATCATGTTATAAATGTATTGAATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253739 146 -  13858734 TCTAAACAAATTCAAA----------------------------ATTTGTAGTTGAGTTAAACAAAATACATTTGAGCACATTTTCTGTTGAAATGTTAATTTATACAGTAAAACATTAATTTACAATTTGGAAGAATTGCAAGTAGAAAATCATGTTATAAATGTACTGAACC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277718 146 +  32716333 TCTAAACACATTCAAAG---------------------------ATTCGTAGTTGAGTTTAACAAAATACA-TTGAGCACATTTTCTGTTGAAATGTTAATTTATGCAGTAAAACATTAATTTACAACTTGGAAGAATTGCAAGTAGAAAATCATGTTATAAATGTATTGCATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691173 148 - 185818997 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTGGGT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAATTAATACAGTGAAACATGAATTTACAATTTGGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325816 148 - 192294377 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTGGGT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAATTAATACAGTGAAACATGAATTTACAATTTGGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949634 148 -  30496662 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTGGGT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAATTAATACAGTGAAACATGAATTTACAATTTGGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474291 148 +  21915920 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTGGGT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAATTAATACAGTGAAACATGAATTTACAATTTGGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975361 148 -  90373283 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTGGGT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAACTGATACAGTGAAACATGAATTTACAATTTGGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479625 148 +   7543664 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTGGGT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAATTAATACAGTGAAACATGAATTTACAATTTGGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250536 148 -  13750039 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTAGTT------AACAAAATACATTTGAACACATTTTCTGTTGAAATGTTAATTGATACAGTGAAACATGAATGTACAATTTAGAAGAACTGCAAGTAGAAAATCATGTTATGAATGTATTGCACC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510154 154 +  50472720 CCTAAACATATTCAAATTAAT--------------------GAGATTTGTAGTTGAATTTAACAGAATACATTTGAACATATTTTCTGTTGAAATGTTAATTTATACAGTAAAATATTTATTTACAATTTGAAAGAATTGCAAGTAGGAAATCATATTATGAATGTATGGCACC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691228 154 +  13128814 TCTAAACACATTCAAATTAAT--------------------AAGATTTGTAGTTGAATTTAACAGAATACATTTGAACATATTTTCTGTTGAAATGTTAATTTATACAGTAAAATATTTATTTACAATGTGGAAGAATTGCAAGTAGGAAATCATATTATGAATGAATGACACC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13934889 154 -  14377064 TCTAAACACATTCAAATTAAT--------------------AAAATTTGTAGTTGAATTTAACAAAATACATTTGAACATATTTTCTGTTGAAATGTTAATTTATACAGTAAAATATTTATTTACAATTTGGAAGAATTGTAAGTAGGAAATCATATTATGAATGTATGGCACC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9159878 174 -   9889416 TCTAAACACATTCAGATTAATAAGATTTGTAGTTGAATTTAAAGATTTGTAGTTGAATTTAACAAAATACATTTGAACATATTTTCTGTTGAAATGTTAATTTATACTGTAAAATATTTATTTACAATTTGGAAGAATTGCAAGTAGGAAATAATATTATGAATGTATGGCATC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876241 151 -  38779656 CCAAAATACATTCAAATTAAT--------------------AAGATTT-TAGTCCTCTTTAACAAAATACATTTAA--ACTTTTTTTATTGAAACACTAATTTACACCATAAAGCATTGATTTATAATTTAGAAGGCCTGCAAATAGGAAATAATGTTATGAAATTATATCTCC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23707056 153 +  47401472 I
e dasNov3.JH578070            2370131 21254 +   3081153 I
e canFam3.chr31              18053991   6 +  39895921 I

a score=643402.000000
s hg38.chr21_GL383579v2_alt    113741 64 +    201197 ATTATGTTCTCCAATGCCTAGTCCATATGTATTATTTTTCCAAATTTAAAGAGGTCAGA---TTTTT
s panTro5.chr21               8732191 64 +  33445071 ATTATGTTCTCCAATGCCTAGTCCATATATATTATTTTTCCAAATTTAAAGAGGGCAGA---TTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271308 64 +  46275980 ATTATGTTCTCCAATGCCTAGTCCATATATATTATTTTTCCAAATTTAAAGAGGGCAGA---TTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253885 61 -  13858734 ---ATGTTCTCCAATGCCTAGTCCATATATATCATTTTTCCAAATTTAAAGAGGGCAGA---TTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277864 64 +  32716333 ATTATATTCTCCAATGCTTAGTCCATATGTATTATTTTTCCAAATTTAAAGAGGGCAGA---TTTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691321 62 - 185818997 ATTATGTTCTTCAATGCCTAGTCCATATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167325964 62 - 192294377 ATTATGTTCTTCAATGCCTAGTCCATATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949782 62 -  30496662 ATTATGTTCTTCAATGCCTAGTCCATATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474439 62 +  21915920 ATTGTGTTCTTCAATGCCTAGTCCCTATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975509 62 -  90373283 ATTATGTTCTTCAATGCCTAGTCCATATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479773 62 +   7543664 ATTATGTTCTTCAATGCCTAGTCCATATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250684 62 -  13750039 ATTATGTTCTTCAATGCCTAGACCATATATATTATTTTTCTAAATTT--AGAGGGCAGA---TTTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510308 65 +  50472720 ATTGCTCTCTCCAATGCCTCATCCATATATATTATTTTTTGAAATTT--AAAGGGAAGATCTTTTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691382 64 +  13128814 ATTACTTTCTCCAATGCCTCATCCATATATATTATTTTTTGAAATTT--AGAGGGCAGATC-TTTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13935043 64 -  14377064 ATTGCTGTCTCCAATGCCTCATCCATATATATTATTTTTTGAAATTT--AGAGGGCAGATC-TTTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9160052 65 -   9889416 ATTACTCTCTTCAATTTCTCATCCATATATATTATTTTTTGAAATTT--AGAGGGCAGATCTTTTTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23707209 64 +  47401472 ATTATGCTTTCCAATGACTGGTCAATATACATTATTTTTTCAAATTTAAAGAGGGCAGA---TCTTT
i micMur3.chr31             I 153 I 922
s otoGar3.GL873528           24876392 63 -  38779656 ATTA-ATTCTCCAATGCCTGGTCAATATGTATTATTGTTCCAGACTGAAAGATGGCAGA---TCTTT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2370131 21254 +   3081153 I
e canFam3.chr31              18053991  6 +  39895921 I

a score=572888.000000
s hg38.chr21_GL383579v2_alt    113805 59 +    201197 AAAAAATACAATGTTTTTTGAATCTTCCCATGTTTAGCTCCCCTCTAATTATTTTAAGA
s panTro5.chr21               8732255 59 +  33445071 AAAAAATACAATGTTTTTTGAATCTTCCCATGTTTAGCTCCCCTCTAATTATTTTAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271372 59 +  46275980 AAAAAATACAATGTTTTTTGAATCTTCCCATGTTTAGCTCCCCTCTAATTATTTTAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8253946 59 -  13858734 AAAAAATATAAAGTTTTTTGAATCTTCCCATGTTTAGCTCCCCTCTAATTATTTTAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277928 59 +  32716333 AAAAAATATAATGTTTTTTGAATCTTCCCATGTTTAGCTCCCCTCTAATTATTTTAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691383 59 - 185818997 AAAAAATATCATGTTTTAAAAATGCTCCCATGTTTAGCTCCTCTCTAATTATTTTAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326026 59 - 192294377 AAAAAATATCATGTTTTAAAAATGCTCCCATGTTTAGCTCCTCTCTAATTATTTTAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949844 59 -  30496662 AAAAAATATCATGTTTTAAAAATGCTCCCATGTTTAGCTCCTCTCTAATTATTTTAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474501 59 +  21915920 AAAAAATATCATGTTTTAAAAATGCTCCCATGTTTAGCGCCTCTCTAATTATTTTAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975571 59 -  90373283 AAAAAATATCATGTTTTAAAAATGCTCCCATGTTTAGCTCCTCTCTAATTATTTTAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479835 59 +   7543664 AAAAAATATCATGTTTTAAAAATGCTCCCATGTTTAGCTCCTCTCTAATTATTTTAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250746 59 -  13750039 AAAAAATATCATGTTTTGTAAATCTTCCCATGTTTGGCTCCTCTCTAATTATTTTAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510373 59 +  50472720 AAACAATATTATGTTTTTTGAATCTTCCCATGTTTATCTTCCCTCTAATTATTTTAAGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691446 59 +  13128814 AAAAAATAGTATGTTTTTTGAATCTTCCCATGTTTATCTCCCCTCCAATTATTTTAAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13935107 59 -  14377064 TAAAAATATTATGTTTATTGAATCTTCCCATATTTATGTCCCCTCCAATTATTTTAAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9160117 59 -   9889416 AAAAAATATTATGTTTTTTGAATCTTCCCATGTTTATCTCCTCTCCAATTATTTTAAGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876455 53 -  38779656 ------CTTTATGTTTTTGGAATCTTCCTATTGTTATTTCTCTTCTAATTACTTTAAGA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23707273 922 +  47401472 I
e dasNov3.JH578070            2370131 21254 +   3081153 I
e canFam3.chr31              18053991  6 +  39895921 I

a score=1438809.000000
s hg38.chr21_GL383579v2_alt    113864 139 +    201197 GCTAATGTCATTAT--TAAAGAAGACATTTTGAAGATCCTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTGTGACATATTTTTGTTAGAAAGCATCTGGAAATTGGATCTCAGTGACTTACCAAA-AGAAATtaaatat
s panTro5.chr21               8732314 139 +  33445071 GCTAATGTCGTTAT--TAAAGAAGACATTTTGAAGCTCCTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTGTGACACATTTTTGTTAGAAAGCATCTGGAAATTGGATCTCAGTGACTTACCAAA-AGAAATTGAatat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271431 139 +  46275980 GCTAATGTCGTTAT--TAAAGAAGACATTTTGAAGCTCCTCTTCCAAGA-CTCTTCCAGGCATTTATTAATTTTGTGACACATTTTTGTTAGAAAGCATCTGGAAATTGGATCTCAGTGACTTACCAAA-AGAAATTGAatat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254005 139 -  13858734 GCTAATGTCATTAT--TAAAGAAGACATTTTGAAGCTCCTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTGTGACACATTTTTGTTAGAAAGCATCTGGAAATTGGATCTCAGTGAGTTACCAAA-AGAAATTAAATAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9277987 138 +  32716333 GCTAATGTCATTAT--AAAAGAAGACATTTTGAAGCTGCTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTATGACACATTTTTGTTAGAAAGCACCTGGAAATTGGATCTCAGTGAGTTACCAAA-AG-AATtaaatat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691442 139 - 185818997 GCTAATGTCATTAT--AAAAGAAGACAGTTTGATGCTCTTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTATGACACATTTTTGTTAGAAAGCACCTGGAAATTGGATTTCAGTGAGTTACCAAA-AGAAATTGAatat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326085 139 - 192294377 GCTAATGTCATTAT--AAAAGAAGACAGTTTGATGCTCTTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTATGACACATTTTTGTTAGAAAGCACCTGGAAATTGGATTTCAGTGAGTTACCAAA-AGAAATTGAatat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4949903 139 -  30496662 GCTAATGTCATTAT--AAAAGAAGACAGTTTGATGCTCTTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTCATGACACATTTTTGTTAGAAAGCACCTGGAAATTGGATTTCAGTGAGTTACCAAA-AGAAATTGAatat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474560 139 +  21915920 GCTAATGTCATTAT--AAAAGAAGACACTTTGATGCTCTTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTATGACACATTTTTGTTAGAAAGCACCTGGAAATTGGATCTCAGTGAGTTACCAAA-AGAAATTGAatat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975630 139 -  90373283 GCTAATGTCATTAT--AAAAGAAGACACTTTGATGCTCTTCTTCCAAGA-CTCTTCCAGGCATTTACTAATTTTATGACACATTTTTGTTAGAAAGCACCTGGAAATTGGATCTCAGTGAGTTACCAAA-AGAAATTGAatat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3479894 139 +   7543664 GCTAATGTCATTAT--AAAAGAAGACACTTTGATGCTCTTCTTCCAAGA-CTCTTCCAGGCGTTTACTAATTTTATGACACATTTTTGTTAGAAAGCACTTGGAAATTGGATCTCAGTGAGTTACCAAA-AGAAATTGAatat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250805 138 -  13750039 GCTAATGTCATCAT--AAAAGAAAACACTTTGAAGTTCCTCTTCTAAAA-CTCTTCCAGGCATTTACTAATTTTATGACACATTTTTGTTAGAAAGCACC-GGAAATTGGATCTCAGTGAGTTAACAAA-AGAAATtaaatat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510432 132 +  50472720 GCTAATGTCATTAT--AAAAGTGGACATTTTGAAGCTCCTCTTCTGAGT-CTTTTCCAGGCATTTACTAATTTTGTGACATATTTTTGTTAGAAAGCAACTGAAAATTGTATCACAGTGAGTTACTAAA-AGAAAT-------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691505 132 +  13128814 GCTAATGTCATTAT--GAAAGTAGACATTTTGAAGCTCCTCTTCCAAGT-CTCTTCCAGGCATTTAATAATTTTGTGACACATTTTTGTTAGAAAGCAACTGAAAATTGGATCACAGTGAGTTACTAAA-AGAAAT-------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13935166 139 -  14377064 GCTAATGTCATTAT--GAAAGTAGACATTTTGAAGCTCCTCTTCCAAGT-CTCTTCCAGGCATTTACTAATTTTGTGACGCATTTTTGTTAGAAAGCAACTGAAAATTGGATCACAGTGAGTTACTAAA-AGAAATTATGTGT
i cebCap1.NW_016107322v1    C 0 I 71
s aotNan1.NW_018487195v1      9160176 139 -   9889416 GCTAATGTCATTAT--GAAAGTAGACATTTTGAAGCTCCTCTTCCAAGT-CTCTTTCAGGCATTTACTAATTTTGTGACACATTTTTGTTAGAAAGCAACTGAAAATTGGATCACAGTGAGTTACTAAA-AGAAATTATGTGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876508 125 -  38779656 GCTACAGTCATTATGGAAAAGTAGACATTCAG----TCACTTTCAAGGA-CTCATTTTATCATTTACTAATTTTGTTGAA-ATTTTTCTTAT--CTCAACAATAAATTAGATTTCAGTGAGTTTCCAGG-AAAA---------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2391385 141 +   3081153 GTTAATATTATTATGGAAAAGTTGATATTTTGAAACTCTTCTTTTGAGGTCTCATTGAAGAATTTGCCAATTCTGTGGCACATTTT--TTATAAGGTCCCAAGATATTAGATCTCAATAAATTACCAGATAAAAAACAAATAT
i dasNov3.JH578070          I 21254 I 14
e micMur3.chr31              23707273 922 +  47401472 I
e canFam3.chr31              18053991   6 +  39895921 I

a score=80198.000000
s hg38.chr21_GL383579v2_alt    114003 50 +    201197 ata-catacatatatgtg----------------------------t-gtatatatgtatgcatata------------------------------------tgtatatatacgt
s panTro5.chr21               8732453 58 +  33445071 ata-catacatatatgtgtct--------------------atatat-gtatatatgtatgcatata------------------------------------tgtatatatacgt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271570 58 +  46275980 ata-catacatatatgtgtct--------------------atatat-gtatatatgtatgcatata------------------------------------tgtatatatacgt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254144 78 -  13858734 ATA-CATACatatatgtgtgtatatatgtatatatgtatgcatatat-gtatatatgtatgcatata------------------------------------tgtatatatacat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278125 79 +  32716333 ata-catacatatatgtgtgtatatatgtatatatgcatgcatatatagtgtatatgcatgcatata------------------------------------tacatatatgtgt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691581 47 - 185818997 ata-catacata-------------------------------acat-acatagatgtatgcatatg------------------------------------tatatatgtatgt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326224 47 - 192294377 ata-catacata-------------------------------acat-acatagatgtatgcatatg------------------------------------tatatatgtatgt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950042 47 -  30496662 ata-catacata-------------------------------acat-acatagatgtatgcatatg------------------------------------tatatatgtatgt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474699 47 +  21915920 ata-catacata-------------------------------acat-acatagatgtatgcatatg------------------------------------tatatatgtatgt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975769 47 -  90373283 ata-catacata-------------------------------acat-acatatatgtatgcatatg------------------------------------tatatatgtatgt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480033 47 +   7543664 ata-catacata-------------------------------acat-acatagatgtatgcatatg------------------------------------tatatatgtatgt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5250943 83 -  13750039 ata-tacacata-------------------------------acat-acatatatgtatgtatgtatgtatgtgtatatacatatatatgtatgcatatgtttatatatgtatgt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510564 15 +  50472720 -------------------------------------------------------tgtgtgtgtgtg------------------------------------tgt----------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691637 25 +  13128814 -------------------------------------------------------TATGTGTGTGTG------------------------------------catacacacacac
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9160315 26 -   9889416 ------------------------------------------------------GTGTGTGCatata------------------------------------tatatatacacac
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876633  7 -  38779656 ---------------------------------------------------------------TATT------------------------------------TGT----------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2391540 44 +   3081153 ATATCAGAAATA-------------------------------TTAT-TTAAATCTGTA---ATATA------------------------------------C-TATCTGTATGT
i dasNov3.JH578070          I 14 I 393
e micMur3.chr31              23707273 922 +  47401472 I
e cebCap1.NW_016107322v1     13935305 71 -  14377064 I
e canFam3.chr31              18053991  6 +  39895921 I

a score=50178.000000
s hg38.chr21_GL383579v2_alt    114053 14 +    201197 atatg----------tgtatatat
s panTro5.chr21               8732511 14 +  33445071 atatg----------tgtatatat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271628 14 +  46275980 atatg----------tgtatatat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254222 14 -  13858734 atatg----------tatatatat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278204 24 +  32716333 atatgcatgcatatatgtatatat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691628 11 - 185818997 atata----------t---tatat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326271 11 - 192294377 atata----------t---tatat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950089 11 -  30496662 atata----------t---tatat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474746 11 +  21915920 atata----------t---tatat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975816 11 -  90373283 atata----------t---tatat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480080 11 +   7543664 atata----------t---tatat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251026 14 -  13750039 atata----------tgtacatat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510579 14 +  50472720 gtgtg----------tgtgtgtgt
i calJac3.chr21             C 0 I 2
s saiBol1.JH378168            8691662 14 +  13128814 acaca----------cacatatat
i saiBol1.JH378168          C 0 I 15
s aotNan1.NW_018487195v1      9160341 14 -   9889416 acaca----------catatatat
i aotNan1.NW_018487195v1    C 0 I 23
e micMur3.chr31              23707273 922 +  47401472 I
e dasNov3.JH578070            2391584 393 +   3081153 I
e cebCap1.NW_016107322v1     13935305 71 -  14377064 I
e canFam3.chr31              18053991  6 +  39895921 I
e otoGar3.GL873528           24876640  0 -  38779656 C

a score=837542.000000
s hg38.chr21_GL383579v2_alt    114067 84 +    201197 atGGTTTTACATTTaagtacaaggaataacatttaaatacctttgcactgtcttcTTTAATATAACATTGTATTTCAAAAAAGA
s panTro5.chr21               8732525 84 +  33445071 atgGTTTTACATTTaagtacaaggaataacatttaaatgcctttgcactgtcttcTTTAATATAACATTGTATTTCAAAAAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271642 84 +  46275980 atgGTTTTACATTTaagtacaaggaataacatttaaatgcctttgcactgtcttcTTTAATATAACATTGTATTTCAAAAAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254236 83 -  13858734 atgGTTTTACATTaaagtacaaggaataacatttaaatacctgtgcactgtcttcTTTAATATAACATTGTATTTCAAAAAAG-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278228 84 +  32716333 atGGTTTTACATTTAAGTACAAAGAATAACATTTAAATACCCGTGCACTGTTTTCTTTAATATAACATTGTATTTCAAAAAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691639 84 - 185818997 atttttttacatttaAGTACAAGGAATAACATTTAAATACCTGTGCACCGTCTTCTTTAATATAACAGTGTATTTCAAAAAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326282 84 - 192294377 atttttttacatttaAGTACAAGGAATAACATTTAAATACCTGTGCACCGTCTTCTTTAATATAACAGTGTATTTCAAAAAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950100 84 -  30496662 atTTTTTTACATTTaagtacaaggaataacatttaaatacctgtgcactgtcttcTTTAATATAACAGTGTATTTCAAAAAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474757 82 +  21915920 atatttttacatTTaagtacaaggaataacatttaaatacctgtgcaccgtcttctttaatata--agtgtatttCAAAAAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975827 84 -  90373283 atatttttacatttaagtataAGGAATAACATTTAAATACCTGTGCACCGTCTTCTTTAATATAACAGTGTATTTCAAAAAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480091 84 +   7543664 atttttttacatttaAGTACAAGGAATAACATTTAAATACCTGTGCACCGTCTTCTTTAATATAACAGTGTATTTCAAAAAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251040 84 -  13750039 atgtttttacatttaAGTACAAGGAATAACATTTAAATACCTGTGCACTATCTTCTTTAATATAACAGTGTATTTCAGAAAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510595 84 +  50472720 atgtttgtACATTTCAGTACAAGGAATAACATTTAAATACCTATGCACTGTCTTCTTTAATATAACATTGCATTTTAAAAAAGA
i calJac3.chr21             I 2 C 0
s saiBol1.JH378168            8691691 80 +  13128814 ATGTTTTTACATTTCAATACAAGGAATAGCATTTAAATACCTATGCACTGTCTTCTTTAATATAACATTGCATTTTAAA----A
i saiBol1.JH378168          I 15 C 0
s cebCap1.NW_016107322v1     13935376 84 -  14377064 ATGTTTTTACATTTCagtacaaggaacaacatttaaatacctatgcactgtcttctttaatataacattgcatttTAAAAAAGA
i cebCap1.NW_016107322v1    I 71 C 0
s aotNan1.NW_018487195v1      9160378 84 -   9889416 ATGTTTTTACATTTCAGTACAAGGAATAACATTTAAATACCTATGCACTGTCTTCTTTAATATAACATTGCATTTTAAAAAAGA
i aotNan1.NW_018487195v1    I 23 C 0
s otoGar3.GL873528           24876640 72 -  38779656 -------TACATTTCAACAAAAGGGATAACATTTCAATCCGTATGCAC----TTATTTACTATAACTTTTTATTTTTTTAAA-A
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23707273 922 +  47401472 I
e dasNov3.JH578070            2391584 393 +   3081153 I
e canFam3.chr31              18053991  6 +  39895921 I

a score=2676367.000000
s hg38.chr21_GL383579v2_alt    114151 267 +    201197 AATAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATCtatattgttttcctgttactgctgttaataaatgattacaaacttaatggcttaaaacaacaaaaaattattatcttatggttctagaagacagaaatctgaaatgtatcttatgggttcaaatcagggtg-tcctcagaactgcattttctctggagactctagagaagattccattttcttacatttttcagcttctaa
s panTro5.chr21               8732609 267 +  33445071 AATAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATCtatattgttttcctgttactgctgttaataaatgattacaaacttaatggctttaaacaacaaaaaattattattttatggttctagaagacagaaatctgaaatgtatcttatgggttcaaatcagggtg-tcctcagaactgcattttctctggagactctagagaagattccattttcttacatttttcagcttctaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271726 267 +  46275980 AATAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATCtatattgttttcctgttactgctgttaataaatgattacaaacttaatggctttaaacaacaaaaaatcattattttatggttctagaagacagaaatctgaaatgtatcttatgggttcaaatcagggtg-tcctcagaactgcattttctctggagactctagagaagattccattttcttacatttttcagcttctaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254319 264 -  13858734 ---AAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATTATGGCATCtatattgttttcctattactgctgttaacaaatgattacaaactaagtggctcaaaacaacaaaaaattattatcttatggttctagaagacagaaatctgaaatgtatcttatgggttcaaatcagggtg-tcctcagaactgcattttctctggagactccagagaagattccattttcttacatttttcagcttctaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278312 267 +  32716333 AAGAAAATATTAGATCGAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATCtatattgttttcctattactgctgttaacaaatgattacaaacgtaatggcttaaaacaacaaaaaattattatcttatggttctagaagacagaaatctgaaatgtatcttatgggttcaaatcagggtg-tcctcagaactgcattttctctggagactctagagaagattccattttcttacatttttcaaattctaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691723 262 - 185818997 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATATACattgtttttctattactgctgttaacaaatgattacaaatgtaatggcttaaaacagcaaaaaattattatcttatggttctagaagacagaagtctgacatgtatcacattggttcatatcagggtg-tcctcagaactgcatttcctccggagactct-----agattccattttcttacattttttagcttctaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326366 262 - 192294377 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATATACattgtttttctattactgctgttaacaaatgattacaaatgtaatggcttaaaacagcaaaaaattattatcttatggttctagaagacagaagtctgacatgtatcacattggttcatatcagggtg-tcctcagaactgcatttcctctggagactct-----agattccattttcttacattttttagcttctaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950184 262 -  30496662 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATATACattgtttttctattactgctgttaacaaatgattacaaatgtaatggcttaaaacagcaaaatattattatcttatggttctagaagacagaagtctgacatgtatcacattggttcatatcagggtg-tcctcagaactgcatttcctctggagactcc-----agattccattttcttacattttttagcttctaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13474839 262 +  21915920 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATATACattgtttttctattactgctgttaacaaatgattacaaacgtaatggcttaaaacagcaaaaaattattatcttatggttctagaagacagaagtctgacatgtatcacattggttcatatcagggtg-tcctcagaactgcatttcctctggagattct-----agattccattttcttacattttttagcttctaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19975911 259 -  90373283 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGTCATATACattgtttttctattactgctgtt---aaatgattacaaacgtaatggcttaaaacagcaaaaaattattatcttatggttctagaagacagaagtctgacatgtatcacattggttcatatcagggcg-tcctcagaactgcattttctctggagactct-----agattccattttcttacatttttcagcttctaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480175 262 +   7543664 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAGAAAACATGGAAAATTAAATAATGGCATATACattgtttttctattactgctgttaacaaatgattaaaaatgtaatggcttaaaacagcaaaaaattattatcttatggttctagaagacagaagtctgacatgtatcacattggttcatatcagggtg-tcctcagaactgcatttcctctggagactct-----agattccattttcttacattttttagcttctaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251124 259 -  13750039 AAGAAAATATTAGATCCAATTTTTAT-TATGCTACATAAAAAAACATGGAAAATTAAATAATGGCATAtatattgttttcctattactgctgtt---aaatgattacaaacgtcatggcttaaaacagcaaaaaattattgtcttatggttctagaagacagaaatctgacatgtatcacattggttcatatcagggtg-tcctcagaactgcattttctctggagactct-----agattccattttcttacatttttcagcttctaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510679 261 +  50472720 AAGAAAATGTTAGATCTAATTTTTAT-TATACTACATCCAAAAACATGGAAAATTAAATGATGGCATCtatattgctttcctattactgctgttaacaaatcactacaaactcaatggcttaaaacaacaaaaattta-----ttatggttctagaagagagaaatctgaaatgtatc-tatgtgttcaaattaaggtg-ttttcagaactgcattttctctggagactccagggaggattcaatttccttgcagttttcagcttgtaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8691771 267 +  13128814 AAGAAAATTTTAGATCCAATTTTTAT-TATATTACATCTGAAAACATGGAAAATTAAATAATGTCATCtatattgcttttctattactgctgttaacaaacgactccgaacttaatggctttaaacaacaaataattattatcttatggttctagaagacagaaatgtgaattgtatc-tatgtgttcaaattaaggtgtttttcagaactgcattttctctggagactccagagaagattcaatttccttgcatttttcagcttctaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13935460 267 -  14377064 AAGAAAATATTAGATCCAATTTTTAT-TATACTACATCTGACAACATGGAAAATTAAATAATGGCATCtatattgctttcctattactgctgttaacaaatgactacgaacttaatggcttaaaacaacaaaaatttattatcttatggttctagaagacagaaatctgaattgtatc-tatgtgttcaaattaaggtgtttttcagaattgcattttctctgaagactccagagaagattcaatttccttgcatttttcagcttctaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9160462 262 -   9889416 AAGAAAATATTAGATCCAATTTTTAT-CATACTACATCTGAAAACACGGAACATTAAGTAATGTCATCtatattgctttcctattacagctgttaacaaatgactacgaacttaa-----taaaacaacaaacatttattatcttatagttctagaagacagaaatctgaattgtatc-tatgtgttcaaattaaggtgtttttcagaactgcattttctttggagactccagagaagattcaatttccttgcatttttcagcttctaa
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876712 253 -  38779656 AGGAAAACATTAGATCCAATTTTTAT-TATAATACAAAAAAA------GAAAGTTAATTATTG---TCTTtattccttttctattactaatg-tgacagatttctacaaactttatggcttgcgattaaacaagaatattatcttacaattttagaagtcagaggtctataaagttta-tttgggatcaaatcaaagtg-tcctcagagctatatttattttggagactcaaaaggagattctgtttccttgcatttgaaagc---tag
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2391977 265 +   3081153 AAAAAAAATTGAGAGCCAATTTTCTTACATACTATGTAGAAAATAAAGGAAACTTGAATAATTACCTCTCtattagtttattactgcaact-ctaataaactactccaaacttaatgacttgaaacaacccaaattt-tcatttcagatatatggatttcaaaggcctaaaatacttctca-ggactgaattcaaggca-gcgtcagtgctatgtcacttaaggaagttctaggggagaatccattctcttacattttccagcttgtag
i dasNov3.JH578070          I 393 C 0
e micMur3.chr31              23707273 922 +  47401472 I
e canFam3.chr31              18053991   6 +  39895921 I

a score=972470.000000
s hg38.chr21_GL383579v2_alt    114418 88 +    201197 aagctacctgcattctttgttctgtgactccttgttttatcttcaaagcacatcactcataactccactctttatctttatatcacct
s panTro5.chr21               8732876 88 +  33445071 aagctacctgcattctttgttctgtgacaccttgttttatcttcaaagcacatcactcataactccactctttatctttatatcacct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22271993 88 +  46275980 aagctacctgcattctttgttctgtgacaccttgttttatcttcaaagcacatcactcataactccactctttatctttatatcacct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254583 88 -  13858734 aagctacctgcattctttgttctgtgacaccttgttttatcttcaaagcacatcactcataactccactctttatctttatatcacct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278579 88 +  32716333 aagccacctgcattctttgttctgtgacaccttgttttatcttcaaagcacatcactcataactccactctttatctttatatcacct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160691985 88 - 185818997 aagctacctgcattctttgttctgtgacacctttcttcatcttcaaagcacatcactcataactccactctttatctttatatcacct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326628 88 - 192294377 aagctacctgcattctttgttctgtgacacctttcttcatcttcaaagcacatcactcataactccactctttatctttatatcacct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950446 88 -  30496662 aagctacctgcattctttgttctgtgacacctttcttcatcttcaaagcacatcactcataactccactctttatctttatatcacct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475101 88 +  21915920 aagctacctgcattctttgttctgtgacacctttcttcatcttcaaagcacgtcactcataactccactctttatctttatatcacct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976170 88 -  90373283 aagctacctgcattctttgttctgtgacacctttcttcattttcaaagcacatcactcataactccactttttatctttatatcacct
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480437 88 +   7543664 aagctacctgcattctttgttctgtgacacctttcttcatcttcaaagcacgtcactcataactccactctttatctttatatcacct
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251383 82 -  13750039 aagctacctgcattctttgttctgtgacacctttcttcatcttcaaagcacgtcactcataactccac------tctttatatcactt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26510940 88 +  50472720 aagctacctgcattctttgttctgtgacatctttcttcatcttcaaagcgcatcactcataaagccactctttttctttgtatcatct
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692038 88 +  13128814 aaactacttgcattctttgttctatgacatctttcttcatcttcaaagcacatcactcatagagcccctctttttctttgtatcacct
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13935727 88 -  14377064 aagctacttgcattctttattctgtgacatctttcttcatcttcaaagcacatcactcataaagccactctttttctttgtgccacct
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9160724 88 -   9889416 aatctacctgcattctttgttctgtgacatctttcttcatcttcaaagcacatcactcataaagccactctttttctttgtatcacct
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24876965 58 -  38779656 ccgctacctgcattccttgttttgtgac-----ttattatctttaaagaa-------------------------cttcatatcattt
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18053997 79 +  39895921 aggtaacctgcattccatgtgttgaggcctttttactcatcttcagagtgcatcactcctacctctaccct---------caccacct
i canFam3.chr31             I 6 I 3
s dasNov3.JH578070            2392242 67 +   3081153 aggc----tgcattccttggtttgtga----------tatcttcaaagtgcatcact-------ccaccctgcccagtcattacatct
i dasNov3.JH578070          C 0 I 423
e micMur3.chr31              23707273 922 +  47401472 I

a score=3389209.000000
s hg38.chr21_GL383579v2_alt    114506 310 +    201197 ctcctctttgacactctgatagttttgtctacttttgtcaagaacacttgtgcctgtattgggcccattgggataatcca-gggtaaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttgctaagtaagataatgcagtctcacgctgtatggtttaagac-ca---acctgggggaggca-ttttttagcctactataCTGTTTCTAGCCTTAGAAAAAGGCACA---------------ATTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-TCT-CAATTCC
s panTro5.chr21               8732964 310 +  33445071 ctcctctttgacactctgatagttttgtctacttttgtcaagaacacttgtgcctgtattgggcccattgggataaccca-gggtaaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttgctaagtaagataatgcagtctcacgctgtatggtttaagac-ca---acctgggggaggca-ttttttagcctactataCTGTTTCTAGCCTTAGAAAAAGGCACA---------------ATTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-CCT-CAATTCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272081 310 +  46275980 ctcctctttgacactctgatagttttgtctacttttgtcaagaacacttgtgcctgtattgggcccattgggataatcca-gggtaaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttgctaagtaagataatgcagtctcacgctgtatggtttaagac-ca---acctgggggaggca-ttttttagcctactataCTGTTTCTAGCCTTAGAAAAAGGCACA---------------ATTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-CCT-CAATTCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254671 310 -  13858734 ctcctctttgacactctgatagttttgtctacttttatcaagaacacttgtgcctgtattgggcccattgggataatcca-gggtaaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttgctaagtaagataatgcagtctcacactgtatggtttaagac-ca---acctgggggaggca-ttttttagcctactataCTGTTTCTAGCCTTAGAAAAAGGCACA---------------ATTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-CCT-CAGTTCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278667 311 +  32716333 ctcctctttgacactctgatagttttgtctacttttatcaagaacacttgtgcttatattgggcccattgggataatcca-gggtaaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccgtttactaagtaaggtaatgcagtctcacgctgtatggtttaagac-ca---accttgggtaggcatttttttagcctactaTTCTGTTTCTAGCCTTAGAAAAAGACACA---------------ATTTTTTAATGG-----------CCAAGAAGTTAAACAGAATTAAAACCATA--------------GTCTCAGTGTTAGGACGCTGTC-CCT-CAATTCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692073 310 - 185818997 ctcctctttgacactctgatagttttgtctacctttatcaagaacacttgtgcttatattgggcccactgggataatcca-gggtcaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttactaagtatggtaatgcagtctcacgttgtatggtttaagac-ca---accttggggaggca-ttttttagcctattataCTGTTTCTAGCCTCAGAAAAAGACACA---------------TTTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGAATAATGTC-CCT-CAATTCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167326716 310 - 192294377 ctcctctttgacactctgatagttttgtctacctttatcaagaacacttgtgcttatattgggcccactgggataatcca-gggtcaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttactaagtatggtaatgcagtctcacgttgtatggtttaagac-ca---accttggggaggca-ttttttagcctattataCTGTTTCTAGCCTCAGAAAAAGACACA---------------TTTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGAATAATGTC-CCT-CAATTCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950534 310 -  30496662 ctcctctttgacactctgatagttttgtctacctttatcaagaacacttgtgcttatattgggcccactgggataatcca-gggtcaactc--cctat-tcaaggtccttaatataaagacaggcacagagttccttttactaagtatggtaatgcagtctcacgttgtatggtttaagac-ca---accttggggaggca-ttttttagcctattataCTGTTTCTAGCCTCAGAAAAAGACACA---------------TTTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGAATAATGTC-CCT-CAATTCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475189 310 +  21915920 cttctctttgacactctgatagttttgtctacctttatcaagaacactcgtgcttatattgggcccactgggataatcca-gggtcaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttactaagtatagtaatgcagtctcacgttgtatggtttaagac-ca---accttggggaggca-ttttttagcctattataCTGTTTCTAGCCTCAGAAAAAGACACA---------------TTTTTTTAATGG-----------CCAAGAAGTAAAACAGAATGAAAACCATA--------------ATCTCAGTGTTAGAATAATGTC-CCT-CAATTCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976258 309 -  90373283 ctcctctttgacactctgatagttttgtctacctttatcaagaacacttgtgcttatattgggcccactgggataatcca-gggtcaactc--cccat-tcaaggtccttaatataatgacaggcaccgagttccttttactaagtgtgataatgcagtctcacgctgtatggtttaagac-ca---accttggggaggca-ttttttagcctattataCTGTTTCTAGCCTCAGAAAAAGACACA----------------TTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAATCATA--------------ATCTCAGTGTTAGAATAATGTC-CCT-CAATTCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480525 310 +   7543664 ctcctctttgacactctgatagttttgtctacctttatcaagaacacttgtgcttatattgggcccactgggataatcca-gggtcaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttactaagtatggtaatgcagtctcacgttgtatggtttaagac-ca---accttggggaggca-ttttttagcctattataCTGTTTCTAGCCTCAGAAAAAGACACA---------------TTTTTTTAATGG-----------CCAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTGTTAGAATAATGTC-CCT-CAATTCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251465 310 -  13750039 ctcctctttaacactctgatagttttgtctacctttatcaagaacactcgtgcttatattgggcccactgggataatcca-gggtcaactc--cccat-tcaaggtccttaatataatgacaggcacagagttccttttcctcagtatgctaatgcagcctcacgctgtatggtttaagac-ca---accttggggaggca-ttttttagcctactataCTGTTTCTAGCCTTAGAAAAAGACACA---------------ATTTTTTAATGG-----------CTAAGAAGTAAAACAGAATTAAAACCATA--------------ATCTCAGTATCAGGATGCTGTC-CCT-CAATTCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511028 310 +  50472720 ctcctctttgacactctgatagttttatctacctttatcaagaacccttgtgcttatattgggcccattgggataatcca-gagtaatctc--cttat-tcaaggtccttaatataatgacaggcacagagttccttttactaagtaaggtaatgaagtctcacgctgcatggtttaagat-ca---acctttgggaggca-tttttcagcctactataCTGCTTCTAAACTTAGAATAAGACACA---------------AGTTTTAAATGG-----------CCAAGAAGTAAAACAGAATTACAACCATA--------------ATCTCAGTGTTAAGATGCTGTC-CCC-CAATCCC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692126 287 +  13128814 ctcctctttgacactctgatagttttgtctacctttatccagaacccttgtgcttatattgggcccattgggataatcct-gagtaaactc--cttat-tcaaggtccttaatataatgacaggcacagagtttcttttgctaaataaggtaatgaagcctcatgttgcatggtttaagat-ca---acctttgggaggc--tttttcagcctactataCTGCTTCTAAACTTAGAA------------------------------------------------AAAGAAGTAAAACAGAATTACAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-CCC-CAATCCC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13935815 310 -  14377064 ctcctctttgacactctgatagttttgtctacctttatcaagaacccttgtgcttatattgggcccattgggacaatcca-aagtaaactc--cttat-tcaaggtccttaacataatgacaggtgcagagttccttttactaagtaaagtaatgcagtctcatgctgcatggtttaagat-ca---acctttgggaggca-tttttcagcctactataCTGCTTCAAAACTTAGAAAAAGACACA---------------AGGTTTAAATGG-----------CCAAGAAGTAAAACAGAATTACAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-CTC-CAGTCCC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9160812 309 -   9889416 ctcgtctttgccactctgatagtttcgtctacctttatcaagaatccctttgcttatattgggcccgtcaggacaatcca-gattaaaatc--cttat-tcaaggtctttaatataatgacaggcacagagttccttttactaagtacggtaatgcagtctcatgctacatggtttaagat-ca---acctttgggaagca-tttttcagccaactataCTGCTTCTAAACTTAGAA-AAAACACA---------------AGTTTTAAATGG-----------CCAAGAAGTAAAACAGAATTACAACCATA--------------ATCTCAGTGTTAGGATGCTGTC-TCC-CAGTCCC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877023 299 -  38779656 ttcctttttctcagttt-----ttttgtctaccttc-cccaggacctttgtgcaggcagtgggccca-gaggataatcca-ggataatctt--ctcat-tagagattcttaatataatcacctgcacagaattccttttattgagtaaaataatatattctcatgttatatagcttaagtc-ca---actttatggagaca-ttattcatcctattataCTATTTCTAACTTTTGCAAAAGATACA---------------CTATAAAAATGA-----------GC--TATGTAAAACAAA--TAAAGATATC--------------ATCACAGTGT-AAAATATAGTC-ACTGTAATTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054079 336 +  39895921 ctcctctttctgattcggatattcttgcccatcttttataaggacctttatgattatactgaagccactgagagaatgcatgatttatctc--ctcctctcaagatccttaaaataatcacat-caatgagtccattttactaagtaatttaatacaaccacaggtcatggagtttaggac-ca---attttggagagcct-ttattcagtctGTTATACTATCCTCAACCTTA-AAAATAATATG---------------ATATAAAAAAGGGCTATGTGAAATCATCAAAGAAAACTGaatttaaaatttaaaatttaaaatttCATCACAGTGTAAAAATGCTGTCAACA-TAATTCC
i canFam3.chr31             I 3 C 0
s dasNov3.JH578070            2392732 328 +   3081153 ctcccctttctgactctgattctcctgccttccttttggaaagagtcttgggattatattggacctacttagataattct-acataatctctatccat-caaaagatact----taatcacaactgctaaattccatttaccatataaggtagcatatttacatgtccctgaaattaggacacagatatgtttggaagtca-ttatcctacctatcataCCATTTCCAACCTTAAAAAAAAAAAAGCAGAAGCTAAAATAGGTCTGTGAATAT-----------CTTCAAAACAAGAAGGAATAGAAAATTTA--------------ATCAGAGTGTTATAGTGCTGCTACCA-CAATTCC
i dasNov3.JH578070          I 423 C 0
e micMur3.chr31              23707273 922 +  47401472 I

a score=605799.000000
s hg38.chr21_GL383579v2_alt    114816 45 +    201197 ATTTAAATA-TTCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
s panTro5.chr21               8733274 45 +  33445071 ATTTAAATA-TTCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272391 45 +  46275980 ATTTAAATA-TTCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8254981 45 -  13858734 ATTTAAATA-TTCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9278978 45 +  32716333 ATTTAAATA-TTCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692383 45 - 185818997 ATTTAAATA-TCCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327026 45 - 192294377 ATTTAAATA-TCCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950844 45 -  30496662 ATTTAAATA-TCCTTGTTCTTAAATCTATGTAACAGATCAAATTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475499 45 +  21915920 ATTTAAATA-TCCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976567 45 -  90373283 ATTTAAATA-TCCTTGCTCTTAAAGCTATGTAACAGATCAAATTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480835 45 +   7543664 ATTTAAATA-TCCTTGTTCTTAAAGCTATGTAACAGATCAAATTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251775 45 -  13750039 ATTTAAATA-TCCTTGTTCTTAAAGCTGTGTAACAGATCAAATTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511338 45 +  50472720 ATTTAAACA-ACCTTGTTCTTAAAGCTATATAACAGATCAAATTAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692413 45 +  13128814 ATTTAAATA-ACCTTGTTCTTAAAGCTATATAACAGATCAAATTAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936125 45 -  14377064 ATTTAAATA-ACCTTGTTCTTACAGCTATATAACAGGTCAAATTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161121 45 -   9889416 ATTTAAATA-ACCTTGTTCTTAAAGCTATGTAAGAGACAAAATTAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23708195 45 +  47401472 ATTTAAATA-TTCCTGTTCTTAAAGTTGTATAACAGATTGAATTAT
i micMur3.chr31             I 922 I 132
s otoGar3.GL873528           24877322 45 -  38779656 ATTTAAATA-TCTTTGGTCTTAAAGCTATATGACAGATTTAATTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054415 43 +  39895921 ATTTAACTA-TTCATACT-TTAAAGCTATGTAGCATATCC-ATTGT
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2393060 45 +   3081153 ATTTAAGAAGTTCTATTTTTTAAACCAATGTAACA-CTAAAACTAC
i dasNov3.JH578070          C 0 C 0

a score=909338.000000
s hg38.chr21_GL383579v2_alt    114861 90 +    201197 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGACGGTTGTAGGTACCTTAATAAGA--AACAAACAAGA
s panTro5.chr21               8733319 90 +  33445071 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGACGGTTGTAGGTACCTTAATAAGA--AGCAAACAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272436 90 +  46275980 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGACGGTTGTAGGTACCTTAATAAGA--AACAAACAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255026 90 -  13858734 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGACGGTTGTAGGTACCTTAATAAGA--AACAAACAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279023 90 +  32716333 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGCTGGAGAGGTCAACAACATGACGGTTGTAGGTACCTTAATAAGA--AACAAACAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692428 86 - 185818997 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGATGGTTGTTGGTACTTTAATAAG------AAACAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327071 86 - 192294377 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGATGGTTGTAGGTACTTTAATAAG------AAACAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950889 86 -  30496662 TTAGAAAATAGTGCTATTAAGTACAAAGTGAGTTGTTGGAGAGGTCAACAACATGATGGTTGTAGGTACTTTAATAAG------AAACAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475544 86 +  21915920 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGATGGTTGTAGGTACTTTGATAAG------AAACAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976612 90 -  90373283 TTAGAAAATAGTGCTATTAAGTGCAAAGTTAGTTGTTGGAGAGGTCAACAACATGATGGTTGTAGGTACTTTAATAAGA--AACAAACAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480880 86 +   7543664 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTCAACAACATGATGGTTGTAGGTACTTTAATAAG------AAACAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251820 89 -  13750039 TTAGAAAATAGTGCTATTAAGTGCAAAGTGAGTTGTTGGAGAGGTC-ACAACATGATGGTTGTAGGTACTTTAATAAGA--AACAAACAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511383 91 +  50472720 TCAGAAAGTAATGTCATTAAGTGCAAAGTAAGTTGTTGGAGAGGTCAACAACATGACTTTC-TAGGTACTTTAAAAACAGCAGCAAAGAGGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692458 92 +  13128814 TCAGAAAGTAATGTCATTAAGTGCAAAGTAAGTTGTTGGAGAGGTCAACAACATGACTGTCGTAGGTACTTTAACAACAGCAACAAAGAAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936170 92 -  14377064 TCAGAAAGTAATGTCATTAGGTGCAAAGTAAGTTGTTCGAGAGGTCAACAACGTGACTGTCGTAGGTACTTTAATAACAGCAACAAAGAAGA
i cebCap1.NW_016107322v1    C 0 I 38
s aotNan1.NW_018487195v1      9161166 91 -   9889416 TCAGAAAGTAACGTCATTAAGTGCAAAGTAAGTTGTTGGAGAGGTCAACAACATGACCGTCGTAGGTACTTTAACAACAGCAACAAAGAAG-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877367 74 -  38779656 GTAAGAACAAATGTCATTAAGTAAAAAGTGTGTTGTTGAAGGGATCAATGACCTGAA--------------TAGTGA----AAAGAACAAGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054459 90 +  39895921 TAAGAAA--AATGTCATTAACTACAAAGAAGTTTGTTGGAAAGGTCACCAGCATGGCTATGGTATGTATTTGAAAAATAGAAACAACCAGGG
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2393105 92 +   3081153 ATAAAGATGAGTATCATTAAATGTAAAGCAGGTTGTTAGAGGGGTCAAGAGCCCAGCTATTGTAGTGATGTGAATAATAACAAGGAAAAAGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23708240 132 +  47401472 I

a score=299821.000000
s hg38.chr21_GL383579v2_alt    114951 38 +    201197 CAGAAAA-ATAGTTTGAACTAATAATCGAACTA-----ATTGCG
s panTro5.chr21               8733409 38 +  33445071 CAGAAAA-ATAGTTTGAACTAATAATCGAACTA-----ATTGCG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272526 38 +  46275980 CAGAAAA-ATAGTTTGAACTAATAATCGAACTA-----ATTGCG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255116 38 -  13858734 CAGAAAA-ATAGTTTGAACTAATAATCGAACTA-----ATTGCG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279113 38 +  32716333 CAGAAAA-ATAGTTTGAACTAATAATCGAACTT-----ATTGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692514 38 - 185818997 CAGAAAA-ATAGTTTGAACTAATAGTCGAACTA-----ACTTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327157 38 - 192294377 CAGAAAA-ATAGTTTGAACTAATAGTCGAACTA-----ACTTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4950975 38 -  30496662 CAGAAAA-ATAGTTGGAACTAATAGTCGAACTA-----ACTTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475630 38 +  21915920 CAGAAAA-ATAGTTTGAACTAATAGTCGAACTA-----ACTTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976702 38 -  90373283 CAGAAAA-ATAGTTTGAACTAATAGTTGAACTA-----ATTTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3480966 38 +   7543664 CAGAAAA-ATAGTTTGAACTAATAGTCGAACTA-----ACTTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251909 38 -  13750039 CAGAAAA-ATAGTTTGAACTAATAGTGGAACCA-----ATTTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511474 36 +  50472720 --AGAAA-ATAGTTCGAGCTAATAGTTGAACAC-----ATTTTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692550 37 +  13128814 --AAAACTGTAGTTTGAGCTAATAGTTGAACAC-----ATTTTG
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9161257 37 -   9889416 -AAAAAA-ATAGTTTGAGCTAATAGTTGAACAC-----ATTTTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877441 42 -  38779656 GAGAAAA-ATAGTTTAAACTAATTGATTAATCATGGC-ATTTCA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054549 36 +  39895921 -ACAGAG-ATAGCTT-AATTGCTTATTCATAGA-----ATTTCA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2393197 40 +   3081153 AAGGAAA-AGAGTTTGAAGTAATTGCTCATTCATGACAATT---
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23708240 132 +  47401472 I
e cebCap1.NW_016107322v1     13936262 38 -  14377064 I

a score=-4148.000000
s hg38.chr21_GL383579v2_alt    114989 2 +    201197 -GA
s panTro5.chr21               8733447 2 +  33445071 -GA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272564 2 +  46275980 -GA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255154 2 -  13858734 -GA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279151 2 +  32716333 -GA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692552 2 - 185818997 -GA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327195 2 - 192294377 -GA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951013 2 -  30496662 -GA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475668 2 +  21915920 -GA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976740 2 -  90373283 -AA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481004 2 +   7543664 -GA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251947 2 -  13750039 -GA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511510 1 +  50472720 -G-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692587 1 +  13128814 -G-
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9161294 1 -   9889416 -G-
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23708372 2 +  47401472 -GA
i micMur3.chr31             I 132 C 0
s otoGar3.GL873528           24877483 2 -  38779656 -GA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054585 2 +  39895921 -GA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2393237 2 +   3081153 CA-
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13936262 38 -  14377064 I

a score=829418.000000
s hg38.chr21_GL383579v2_alt    114991 63 +    201197 AATTTGAAGAG-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTGCTAAAAGAATGA
s panTro5.chr21               8733449 63 +  33445071 AATTTGAAGAG-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTGCTAAAAGAATGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272566 63 +  46275980 AATTTGAAGAG-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTGCTAAAAGAATGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255156 63 -  13858734 AATTTGAAGAG-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTGCTAAAAGAATGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279153 63 +  32716333 AATTTGAAGAG-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTGCTAAAAGAATGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692554 63 - 185818997 AATTTGAAGAC-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------GCAATACTGCTAAAAGAATGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327197 63 - 192294377 AATTTGAAGAC-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------GCAATACTGCTAAAAGAATGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951015 63 -  30496662 AATTTGAAGAC-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------GCAATACTGCTAAAAGAATGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475670 63 +  21915920 AATTTGAAGAT-GGACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------GCAATACTGCTAAAAGAATGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976742 63 -  90373283 AAATTGAAGAC-GGACTTAAA-AACAATAAATTAAGCAAGT--------TTA--------GCAATACTGCTAAAAGAATGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481006 63 +   7543664 AATTTGAAGAT-GGACTTAAA-AATAATAAATTAAGTAAGT--------TTA--------GCAATACTGCTAAAAGAATGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5251949 63 -  13750039 AATTTGAAGAG-GGACTTAAA-AATAATAAATTGAGCAAGT--------TTA--------CCAATACTGCTGAAAGAATGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511511 63 +  50472720 AATTTGAAGAG-GAACTTAAA-AATAACAAATTAAGCAAGT--------TTT--------CCAATACTGCTAAAAGGATGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692588 63 +  13128814 AGTTTGAAGAG-GAACTTAAA-AATAATATGTTAAGCAAGT--------TTA--------CCAATACTACTAAAAGAATGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936300 63 -  14377064 AATTTGAAGAG-GAACTTGAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTACTAAAAGAATGA
i cebCap1.NW_016107322v1    I 38 C 0
s aotNan1.NW_018487195v1      9161295 63 -   9889416 AATTTGAAGAG-GAACTTAAA-AATAATAAATTAAGCAAGT--------TTA--------CCAATACTGCTAAAAGAATGA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23708374 64 +  47401472 AATTTGAAGAG-GGACTTAAAGAGTAGTAAATAAAGCAACT--------TTG--------TCAATACTGCTGAAAGaatga
i micMur3.chr31             C 0 I 4248
s otoGar3.GL873528           24877485 65 -  38779656 AATTTGAAAAGCGAACTTAAAGAATAATAAATAAAGCAACT--------TTG--------CCAATACTGCTGAAAGAATGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054587 71 +  39895921 CAGTGGGAGTG-GGGCATAAA-AATAGTAAATAAAACAAGTATGAGTAGCTG--------GAAATATTGATGAAAGAATGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2393239 68 +   3081153 AAATTGAAG---GGAATTAAA-AATTGCTAAATCATAGAGT--------TTAAGCATATGGAAATATTGTTGAAA-AATGA
i dasNov3.JH578070          C 0 C 0

a score=744342.000000
s hg38.chr21_GL383579v2_alt    115054  85 +    201197 GCT----AAAAATACACAAATGATTGGATTGATA--------------------------ACTGGTAGAATAGGG-aaa-aataaattt-aaaatgtaagaaata----ttttaaaatattg
s panTro5.chr21               8733512  85 +  33445071 GCT----AAAAATACACAAATGATTGGATTGATA--------------------------ACTGGTAAAATAGGA-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATATTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272629  85 +  46275980 GCT----AAAAATACACAAATGATTGGATTGATA--------------------------ACTGGTAAAATAGGA-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATATTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255219  85 -  13858734 GCT----AAAAATACACAAATGATTGGATTGATA--------------------------ACTGGTAAAATAGGG-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATATTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279216  85 +  32716333 GCT----AAAAATACACAAATGATTGAACTGATA--------------------------ACTGGTAAAACAGAG-AAA-AATAAATTTAAAAATGTAAGAAATA----TTTT-AAATGTTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692617  86 - 185818997 GCT---AAAAAATACACAAATGATTGGATTGATA--------------------------ACTGCTAAAATAGAG-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327260  86 - 192294377 GCT---AAAAAATACACAAATGATTGGATTGATA--------------------------ACTGCTAAAATAGAG-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951078  86 -  30496662 GCT---AAAAAATACACAAATGATTGGATTGATA--------------------------ACTGCTAAAATAGAG-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475733  86 +  21915920 GCT---AAAAAATACACAAATGATTGGATTGATA--------------------------ACTGCTAAAATAGAG-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976805  85 -  90373283 GCT----AAAAATACACAAATGATTGGATTGATA--------------------------ACTGCTAAAATAGAC-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481069  86 +   7543664 GCT---AAAAAATACACAAATGATTGGATTGATA--------------------------ACTGCTAAAATAGAG-AAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252012  86 -  13750039 GCT---AAAAAATACACAAATGATTGGATTGATA--------------------------GCTGGTAAAATAGAG-AAA-AATAAATTT-AAAGTGTAAGAAATA----TTTTAAAATGTTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511574  80 +  50472720 ATTTTTAAAAAATATA---------GGGTTGATA--------------------------ATGGGTAAAATACAG-AAA-AATCTTTTT-TAAATGTATGAAATA----TTTTAAAATGTTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692651  81 +  13128814 ATT----AAAAATATA-----GATTGGATTGATA--------------------------ATTGGTAAGATACAGAAAA-AATAAATCT-AAAATGAAAGAAATA----TTTTAAAATGTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936363  80 -  14377064 GTT-----AAAATATA-----GATTGGATTGATA--------------------------ATTGGTAAAATGCAGAAAA-AACAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161358  83 -   9889416 ATT--AAAAAAAAAAA-----GATTGGGTTGATA--------------------------ATTGTTAAAATACAGAAAA-AATAAATTT-AAAATGTAAGAAATA----TTTTAAAATGTTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877550  76 -  38779656 -------ATAAAGAAGCAAATAATTAAATTTATA--------------------------ACTGATAGGATA----AAA-AACATACaa-aaaa---aataaata----ttttaaaatatGG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054658 105 +  39895921 -------ATAAAGGAGGAAATGAGTAGGTATATATTATAATAAAGAAATAATGCCAAAAGACAGGTAAAATAATG-AAT-GAAAGAGTA-TGAATGCAAAA---A----TTATAAAATCTGG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2393307  86 +   3081153 --------ATAAAAAACAAATGCTTGGATGGATG--------------------------AGTGATGGAATAGAG-AAATAATGAATGC-AAAAAGAAAAAACTAAAGGACTTAAAATTCTG
i dasNov3.JH578070          C 0 I 7107
e micMur3.chr31              23708438 4248 +  47401472 I

a score=132464.000000
s hg38.chr21_GL383579v2_alt    115139 12 +    201197 actcaaaatatc
s panTro5.chr21               8733597 12 +  33445071 ACTCAAAATATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22272714 12 +  46275980 ACTCAAAATATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255304 12 -  13858734 ACTCAAAATATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279301 12 +  32716333 ATTCAAAATATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160692703 12 - 185818997 ACTCAAAATATC
i rheMac8.chr3              C 0 I 394
s macFas5.chr3              167327346 12 - 192294377 ACTCAAAATATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951164 12 -  30496662 ACTCAAAATATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475819 12 +  21915920 ACTCAAAATATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976890 12 -  90373283 ACTCAAAATATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481155 12 +   7543664 ACTCAAAATATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252098 12 -  13750039 ACTCAAAATATC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511654 12 +  50472720 ACTGAAAATATC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8692732 12 +  13128814 ACTCGAAATATC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936443 12 -  14377064 ACGCAAAATATC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161441 12 -   9889416 ACTCAAAATATC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877626 12 -  38779656 AATCAAAACTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054763 12 +  39895921 AATAAATTTATT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=8071.000000
s hg38.chr21_GL383579v2_alt    115151 1 +    201197 c
s panTro5.chr21               8733609 1 +  33445071 C
i panTro5.chr21             C 0 I 387
s panPan2.chr21              22272726 1 +  46275980 C
i panPan2.chr21             C 0 I 387
s gorGor5.CYUI01015003v1      8255316 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 I 380
s nomLeu3.chr25               9279313 1 +  32716333 C
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167327358 1 - 192294377 T
i macFas5.chr3              C 0 I 387
s macNem1.NW_012015021v1      4951176 1 -  30496662 C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475831 1 +  21915920 C
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976902 1 -  90373283 C
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481167 1 +   7543664 C
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252110 1 -  13750039 C
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26511666 1 +  50472720 C
i calJac3.chr21             C 0 I 379
s saiBol1.JH378168            8692744 1 +  13128814 C
i saiBol1.JH378168          C 0 I 383
s cebCap1.NW_016107322v1     13936455 1 -  14377064 C
i cebCap1.NW_016107322v1    C 0 I 381
s aotNan1.NW_018487195v1      9161453 1 -   9889416 C
i aotNan1.NW_018487195v1    C 0 I 374
s otoGar3.GL873528           24877638 1 -  38779656 T
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054775 1 +  39895921 T
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e rheMac8.chr3              160692715 394 - 185818997 I

a score=12376.000000
s hg38.chr21_GL383579v2_alt    115152 1 +    201197 t
s panTro5.chr21               8733997 1 +  33445071 t
i panTro5.chr21             I 387 C 0
s panPan2.chr21              22273114 1 +  46275980 t
i panPan2.chr21             I 387 C 0
s gorGor5.CYUI01015003v1      8255697 1 -  13858734 t
i gorGor5.CYUI01015003v1    I 380 C 0
s nomLeu3.chr25               9279314 1 +  32716333 T
i nomLeu3.chr25             C 0 I 387
s macFas5.chr3              167327746 1 - 192294377 t
i macFas5.chr3              I 387 C 0
s macNem1.NW_012015021v1      4951177 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13475832 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19976903 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481168 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252111 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26512046 1 +  50472720 t
i calJac3.chr21             I 379 C 0
s saiBol1.JH378168            8693128 1 +  13128814 t
i saiBol1.JH378168          I 383 C 0
s cebCap1.NW_016107322v1     13936837 1 -  14377064 t
i cebCap1.NW_016107322v1    I 381 C 0
s aotNan1.NW_018487195v1      9161828 1 -   9889416 t
i aotNan1.NW_018487195v1    I 374 C 0
s otoGar3.GL873528           24877639 1 -  38779656 T
i otoGar3.GL873528          C 0 I 3
s canFam3.chr31              18054776 1 +  39895921 T
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e rheMac8.chr3              160692715 394 - 185818997 I

a score=10920.000000
s hg38.chr21_GL383579v2_alt    115153 1 +    201197 t
s panTro5.chr21               8733998 1 +  33445071 t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273115 1 +  46275980 t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255698 1 -  13858734 t
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279702 1 +  32716333 t
i nomLeu3.chr25             I 387 C 0
s macFas5.chr3              167327747 1 - 192294377 t
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4951178 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 I 391
s cerAty1.NW_012002954v1     13475833 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 I 387
s chlSab2.chr2               19976904 1 -  90373283 T
i chlSab2.chr2              C 0 I 387
s manLeu1.NW_012103476v1      3481169 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 I 391
s colAng1.NW_012120598v1      5252112 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 I 387
s calJac3.chr21              26512047 1 +  50472720 t
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693129 1 +  13128814 t
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936838 1 -  14377064 t
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161829 1 -   9889416 t
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18054777 1 +  39895921 T
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e rheMac8.chr3              160692715 394 - 185818997 I
e otoGar3.GL873528           24877640 3 -  38779656 I

a score=3321.000000
s hg38.chr21_GL383579v2_alt    115154 1 +    201197 g
s panTro5.chr21               8733999 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273116 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255699 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279703 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26512048 1 +  50472720 g
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693130 1 +  13128814 g
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936839 1 -  14377064 g
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161830 1 -   9889416 g
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18054778 1 +  39895921 A
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e cerAty1.NW_012002954v1     13475834 387 +  21915920 I
e macNem1.NW_012015021v1      4951179 391 -  30496662 I
e macFas5.chr3              167327748 1 - 192294377 I
e rheMac8.chr3              160692715 394 - 185818997 I
e otoGar3.GL873528           24877640 3 -  38779656 I
e colAng1.NW_012120598v1      5252113 387 -  13750039 I
e manLeu1.NW_012103476v1      3481170 391 +   7543664 I
e chlSab2.chr2               19976905 387 -  90373283 I

a score=6527.000000
s hg38.chr21_GL383579v2_alt    115155 3 +    201197 aag-
s panTro5.chr21               8734000 3 +  33445071 aag-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273117 3 +  46275980 aag-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255700 3 -  13858734 aag-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279704 3 +  32716333 aag-
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167327749 3 - 192294377 aaa-
i macFas5.chr3              I 1 C 0
s chlSab2.chr2               19977292 3 -  90373283 aag-
i chlSab2.chr2              I 387 C 0
s colAng1.NW_012120598v1      5252500 3 -  13750039 aag-
i colAng1.NW_012120598v1    I 387 C 0
s calJac3.chr21              26512049 3 +  50472720 gat-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693131 3 +  13128814 aag-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936840 3 -  14377064 aag-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161831 3 -   9889416 aag-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877643 2 -  38779656 AA--
i otoGar3.GL873528          I 3 C 0
s canFam3.chr31              18054779 3 +  39895921 -AGA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e cerAty1.NW_012002954v1     13475834 387 +  21915920 I
e macNem1.NW_012015021v1      4951179 391 -  30496662 I
e rheMac8.chr3              160692715 394 - 185818997 I
e manLeu1.NW_012103476v1      3481170 391 +   7543664 I

a score=9557.000000
s hg38.chr21_GL383579v2_alt    115158 1 +    201197 g
s panTro5.chr21               8734003 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273120 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255703 1 -  13858734 a
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279707 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160693109 1 - 185818997 g
i rheMac8.chr3              I 394 C 0
s macFas5.chr3              167327752 1 - 192294377 g
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951570 1 -  30496662 g
i macNem1.NW_012015021v1    I 391 C 0
s cerAty1.NW_012002954v1     13476221 1 +  21915920 g
i cerAty1.NW_012002954v1    I 387 C 0
s chlSab2.chr2               19977295 1 -  90373283 g
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481561 1 +   7543664 g
i manLeu1.NW_012103476v1    I 391 C 0
s colAng1.NW_012120598v1      5252503 1 -  13750039 g
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26512052 1 +  50472720 g
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693134 1 +  13128814 g
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936843 1 -  14377064 g
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161834 1 -   9889416 t
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877645 1 -  38779656 G
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18054782 1 +  39895921 G
i canFam3.chr31             C 0 I 2530
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=192063.000000
s hg38.chr21_GL383579v2_alt    115159 19 +    201197 atctcaggatggaatatag
s panTro5.chr21               8734004 19 +  33445071 atctcaggatggaatatag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273121 19 +  46275980 atctcaggatggaatatag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255704 19 -  13858734 atctcaggatggaatatag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279708 19 +  32716333 atctcaggatggaatatag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160693110 19 - 185818997 atctcaggatagaatatag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327753 19 - 192294377 atctcaggatagaatatag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951571 19 -  30496662 atctcaggatagaatatag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13476222 19 +  21915920 atctcaggatagaatatag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19977296 19 -  90373283 atctcaggatagaatatag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481562 19 +   7543664 atctcaggatagaatatag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252504 19 -  13750039 atctcaggatagaatatag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26512053 19 +  50472720 gattctggatgaaatatag
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693135 19 +  13128814 atctctggatagaatatag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936844 19 -  14377064 atctctggatagaatatag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161835 19 -   9889416 atctctggatggaatatag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24877646 17 -  38779656 AACT--AGAAATAATATAG
i otoGar3.GL873528          C 0 I 2846
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e canFam3.chr31              18054783 2530 +  39895921 I

a score=894232.000000
s hg38.chr21_GL383579v2_alt    115178 103 +    201197 acaattatataaaaattt-aaaata-ttaaaaaGTAttactagtagtgcagggaaagaggacatgggaagatgttggtcaaagggt--acaaaattacagttacaca
s panTro5.chr21               8734023 103 +  33445071 acaatgatataaaaattt-aaAATA-TTAAAAAGTAttactagtagtgcagggaaagaggacatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273140 103 +  46275980 acaatgatataaaaattt-aaAATA-TTAAAAAGTAttactagtagtgcagggaaagaggacatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255723 103 -  13858734 acaatgatataaaaattt-aaaata-ttaaaaagtattactagtagtgcagggaaagaggaaatgggaagatgttggtcaaagggt--acaaaattacagtcacaca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279727 103 +  32716333 acagtgatataaaaattt-aaAATA-TTAAAAATTAttactagtagtgcagggaaagaggaaatgggaagatattggtcaatgggt--acaaaattacagttacaca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160693129 102 - 185818997 acaatgatataaaaattt-aaggta-tt-aaaagtattactagtagttgggggaaataggaaatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327772 102 - 192294377 acaatgatataaaaattt-aaggta-tt-aaaagtattactagtagttgggggaaataggaaatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951590 102 -  30496662 acaatgatataaaaattt-aaggta-tt-aaaagtattactagtagttgggggaaataggaaatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13476241 102 +  21915920 gcaatgatataaaaattt-aaggta-tt-aaaagtattactagtagttgggggaaataggaaatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19977315 102 -  90373283 acaatgatataaaaattt-aaggta-tt-aaaagtattactagtagttgggggaaataggaaatgggaagatgttggtcaaagggt--acaaaattacagatactca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481581 102 +   7543664 acaatgatataaaaattt-aaggta-tt-aaaagtattactagtagttgggggaaataggaaatgagaagatgttggtcaaagggt--acaaaattacagttacaca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252523 102 -  13750039 acaatgatatgaaaattt-aaagta-tt-aaaagtattactagtagttgggggaaataggaaatgggaagatgttggtcaaagggt--acaaaattacagttacaca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26512072 106 +  50472720 acaatgatataaacatttaaaagta-ttaaaaagtgttactaatagtggagggaaagaggaaatgagaagatgttgctcaaagggtaaaaaaaaatacatttatgaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693154 103 +  13128814 acaatgatataaaaatttaaaagtatttaaaaagtgttactactagtggaaggaaagaggaaatg---agatgttggtcaaagGGT-AAAAAAAATACATTTATGAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936863 104 -  14377064 acaatgatataaaaatttaaaagta-ttaaaaagtgttactactagtggagggaaagaggaaatgagaagatgttggtcaaagggt--aaaaaaatacatttatgaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161854 104 -   9889416 acaatgatataaaaatttaaaagta-ttaaaaagtgttactactagtggagggaaagaggaaatgagaagatgttggtcaaagggt--aaaaaaatacatttatgaa
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e canFam3.chr31              18054783 2530 +  39895921 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=7759290.000000
s hg38.chr21_GL383579v2_alt    115281 756 +    201197  
s panTro5.chr21               8734126 756 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273243 756 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8255826 756 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9279830 757 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160693231 757 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167327874 757 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4951692 757 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13476343 757 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19977417 757 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3481683 757 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5252625 757 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26512178 744 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8693257 751 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13936967 751 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9161958 751 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18057313 769 +  39895921  
i canFam3.chr31             I 2530 I 212
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=6553531.000000
s hg38.chr21_GL383579v2_alt    116037 681 +    201197  
s panTro5.chr21               8734882 681 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22273999 681 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8256582 681 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9280587 680 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160693988 671 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167328631 671 - 192294377  
i macFas5.chr3              C 0 I 325
s macNem1.NW_012015021v1      4952449 671 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13477100 671 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19978174 674 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3482440 671 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5253382 678 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26512922 662 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8694008 665 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13937718 669 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9162709 676 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18058294 661 +  39895921  
i canFam3.chr31             I 212 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=35072.000000
s hg38.chr21_GL383579v2_alt    116718 3 +    201197 AAC
s panTro5.chr21               8735563 3 +  33445071 AAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274680 3 +  46275980 AAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257263 3 -  13858734 AAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281267 3 +  32716333 AAC
i nomLeu3.chr25             C 0 I 2
s rheMac8.chr3              160694659 3 - 185818997 AAC
i rheMac8.chr3              C 0 I 372
s macFas5.chr3              167329627 3 - 192294377 aac
i macFas5.chr3              I 325 C 0
s macNem1.NW_012015021v1      4953120 3 -  30496662 AAC
i macNem1.NW_012015021v1    C 0 I 191
s cerAty1.NW_012002954v1     13477771 3 +  21915920 AAC
i cerAty1.NW_012002954v1    C 0 I 364
s chlSab2.chr2               19978848 3 -  90373283 AAC
i chlSab2.chr2              C 0 I 382
s manLeu1.NW_012103476v1      3483111 3 +   7543664 AAC
i manLeu1.NW_012103476v1    C 0 I 362
s colAng1.NW_012120598v1      5254060 3 -  13750039 AAC
i colAng1.NW_012120598v1    C 0 I 375
s calJac3.chr21              26513584 3 +  50472720 AAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8694673 3 +  13128814 AAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938387 3 -  14377064 AAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163385 3 -   9889416 AAC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18058955 3 +  39895921 CAC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=1170.000000
s hg38.chr21_GL383579v2_alt    116721 2 +    201197 AT-
s panTro5.chr21               8735566 2 +  33445071 AT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274683 2 +  46275980 AT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257266 2 -  13858734 AT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281272 2 +  32716333 AT-
i nomLeu3.chr25             I 2 C 0
s macFas5.chr3              167329630 2 - 192294377 at-
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26513587 1 +  50472720 -T-
i calJac3.chr21             C 0 I 3
s saiBol1.JH378168            8694676 1 +  13128814 -T-
i saiBol1.JH378168          C 0 I 3
s cebCap1.NW_016107322v1     13938390 1 -  14377064 -T-
i cebCap1.NW_016107322v1    C 0 I 3
s aotNan1.NW_018487195v1      9163388 1 -   9889416 -T-
i aotNan1.NW_018487195v1    C 0 I 27
s canFam3.chr31              18058958 2 +  39895921 -TT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e cerAty1.NW_012002954v1     13477774 364 +  21915920 I
e macNem1.NW_012015021v1      4953123 191 -  30496662 I
e rheMac8.chr3              160694662 372 - 185818997 I
e otoGar3.GL873528           24877663 2846 -  38779656 I
e colAng1.NW_012120598v1      5254063 375 -  13750039 I
e manLeu1.NW_012103476v1      3483114 362 +   7543664 I
e chlSab2.chr2               19978851 382 -  90373283 I

a score=30076.000000
s hg38.chr21_GL383579v2_alt    116723 21 +    201197 -----TTTAAAAAA---------------CTCTTCACTT-AA
s panTro5.chr21               8735568 22 +  33445071 -----TTTAAAAAAA--------------CTCTTCACTT-AA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274685 21 +  46275980 -----TTTAAAAAA---------------CTCTTCACTT-AA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257268 21 -  13858734 -----TTTAAAAAA---------------CTCTTCACAT-AA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281274 21 +  32716333 -----TTAAAAAAA---------------CTCTTCACAT-AA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167329632 37 - 192294377 -----ctcaaaaaaaaaaaaaaaaaaaaCctcttcacataaa
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26513591 23 +  50472720 -----TTAAAAAAATA-------------CTCTTCTGAA-AA
i calJac3.chr21             I 3 I 1
s saiBol1.JH378168            8694680 22 +  13128814 -----Tt-aaaaaata-------------ctcttcagaa-aa
i saiBol1.JH378168          I 3 I 1
s cebCap1.NW_016107322v1     13938394 23 -  14377064 -----TTAAAAAAATA-------------CTCTTCAGAA-AA
i cebCap1.NW_016107322v1    I 3 I 1
s canFam3.chr31              18058960 28 +  39895921 ATTAATGGAGAAAAAA-------------CACTCCAGGA-AA
i canFam3.chr31             C 0 I 3
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e cerAty1.NW_012002954v1     13477774 364 +  21915920 I
e macNem1.NW_012015021v1      4953123 191 -  30496662 I
e rheMac8.chr3              160694662 372 - 185818997 I
e aotNan1.NW_018487195v1      9163389 27 -   9889416 I
e otoGar3.GL873528           24877663 2846 -  38779656 I
e colAng1.NW_012120598v1      5254063 375 -  13750039 I
e manLeu1.NW_012103476v1      3483114 362 +   7543664 I
e chlSab2.chr2               19978851 382 -  90373283 I

a score=13753.000000
s hg38.chr21_GL383579v2_alt    116744 8 +    201197 TGTTCTTT--
s panTro5.chr21               8735590 8 +  33445071 TGTTCTTT--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274706 8 +  46275980 TGTTCTTT--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257289 8 -  13858734 TGTTCTTT--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281295 8 +  32716333 TGTTCTTC--
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167329669 8 - 192294377 tgctgttc--
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26513615 8 +  50472720 TGATGTTC--
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8694703 8 +  13128814 tgatgttc--
i saiBol1.JH378168          I 1 C 0
s cebCap1.NW_016107322v1     13938418 8 -  14377064 TGATGTTC--
i cebCap1.NW_016107322v1    I 1 C 0
s aotNan1.NW_018487195v1      9163416 8 -   9889416 TGATGTTG--
i aotNan1.NW_018487195v1    I 27 C 0
s canFam3.chr31              18058991 8 +  39895921 --TTATCCTA
i canFam3.chr31             I 3 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e cerAty1.NW_012002954v1     13477774 364 +  21915920 I
e macNem1.NW_012015021v1      4953123 191 -  30496662 I
e rheMac8.chr3              160694662 372 - 185818997 I
e otoGar3.GL873528           24877663 2846 -  38779656 I
e colAng1.NW_012120598v1      5254063 375 -  13750039 I
e manLeu1.NW_012103476v1      3483114 362 +   7543664 I
e chlSab2.chr2               19978851 382 -  90373283 I

a score=1142957.000000
s hg38.chr21_GL383579v2_alt    116752 113 +    201197 TGgcaaaagagaattgtaactaaatattatagaagaaatttaaaaggaagaa-taaagcactttaat----aaaggaagattataaagtagacatgcaagaacacagagtaga-taagg
s panTro5.chr21               8735598 113 +  33445071 TGgcaaaagagaattgtaactaaatattatagaagaaatttaaaaggaagaa-taaagcactttaat----aaaggaagattataaagtagacatacaagaacacagagtaga-taagg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274714 113 +  46275980 TGGCAAAAGAGAATTGTAACTAAATATTATAGAAGAAATTTAAAAGGAAGAA-TAAAGCACTTTAAT----AAAGGAAGATTATAAAGTAGACATACAAGAACACAGAGTAGA-TAAGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257297 113 -  13858734 TGgcagaagagaattgtaactaaatattatagaagaaatttaaaaggaagaa-taaagcactttaat----aaaggaagattataaagtagacatacaagaacacagagtaga-taagg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281303 113 +  32716333 TGgcaaaggagaattgtaactaaatactatagaagaaatttaaaaggaagaa-taaagcactttaat----aaaggaagattataaagtagacgtacaagaacacagagtaga-taagg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695034 112 - 185818997 tggcaaaggagaattgtaactaaatattatagaagaaatttaaaaggaagaa--aaatcactttaat----aaaggaagattataaagtagacatacaagaatgcaaagtaga-taagg
i rheMac8.chr3              I 372 C 0
s macFas5.chr3              167329677 112 - 192294377 tggcaaaggagaattgtaactaaatattatagaagaaatttaaaaggaagaa--aaatcactttaat----aaaggaagattataaagtagacatacaagaatgcaaagtaga-taagg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4953314 112 -  30496662 tggcaaaggagaattgtaactaaatattatagaagaaatttaaaaggaagaa--aaatcactttaat----aaaggaagattataaagtagacatacaagaatgcagagtaga-taagg
i macNem1.NW_012015021v1    I 191 C 0
s cerAty1.NW_012002954v1     13478138 112 +  21915920 tggcaaaggagaattgtaactaaatattatagaagaaatttaaaaggaagaa--aaatcactttaat----aaaggaagattataaggtagacatacaagaatgcagagtaga-taagg
i cerAty1.NW_012002954v1    I 364 C 0
s chlSab2.chr2               19979233 113 -  90373283 tggcaaaggagaattgtaactaaatattatagaagaaatttaaaaggaagaa-taaatcactttaat----aaagaaagattataaagtagacatacaagaatgcagagtaga-taagg
i chlSab2.chr2              I 382 C 0
s manLeu1.NW_012103476v1      3483476 112 +   7543664 tggccaaggagaattgtaactaaatattatagaagaaatttaaaaggaagaa--aaatcactttaat----aaaggaagattataaagtagacatacaagaatgcagagtaga-taagg
i manLeu1.NW_012103476v1    I 362 C 0
s colAng1.NW_012120598v1      5254438 113 -  13750039 TGGCAAAGGAGAATTGTTACTAAATATTATAGAAGAAATTTAAAAGGAAGAA-TAAATCACTTTAAT----AAAGGAAGATTATAAAGTAGACATACAAGAATGCAGAGTAGA-TAAGG
i colAng1.NW_012120598v1    I 375 C 0
s calJac3.chr21              26513623 113 +  50472720 TGGAAATAGAGAATTGTAAGTAAATATTATATAAGAAATTTAAAAGGAAGAA-TAAATCACTTTAAT----AAAGGAAAGTTATCAAGTAGACATACAAGAAAACAGAGTAGA-CAGGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8694711 113 +  13128814 tggcaatagagaattgtaactaaatatcatagaataaattttaaaggaagaa-taaatcactttaat----aaaggaaatttatcaagtagacatacaagaaaacagagtaga-taggg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938426 114 -  14377064 TGGCAATAGAGAATTGTAACTAAATATTATAGAAGAAATTTAAAAGGAAGAA-TAAATCACTTTAAT----AAAGGGAAGTTATCAAGTAGACATACAAGAAAACAGAGTAGAGTAGGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163424 113 -   9889416 TGGCAATAGAGAATTGTAACTAAATATTATAGAAGAAATTTAGAAGGAAGAA-TAAATCACTTTAAT----AAAGGAAAGTTATCAAGTAGACATACAAGAAAATAGAGTAGA-TAGGG
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18058999 112 +  39895921 GAGCAAAGGAAAATTGTAACTAAATGTTAAAGCAAGAGTTTCTGAAGATGAAAAAAAATGTTTTAATGAAGGAAGGAAGACCTTAAAGTCAATGTGAAAGAAT-CAGAGAAAG------
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23708438 4248 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=1138399.000000
s hg38.chr21_GL383579v2_alt    116865 100 +    201197 cacaagaaagatgaaaataaaatatgag--------------ttTATAAATTGAAAGATAGCATCTTATATCAAAAATAATTGATCCATAATTGTAAAAACAGAAACAAATCTT
s panTro5.chr21               8735711 100 +  33445071 cacaagaaagatgaaaataaaatatgag--------------ttTATAAATTGAAAGATAGCATCTTATATCAAAAATAATTGATCCATAATTGTAAAAACAGAAACAAATCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274827 100 +  46275980 CACAAGAAAGATGAAAATAAAATATGAG--------------TTTATAAATTGAAAGATAGCATCTTATATCAAAAATAATTGATCCATAATTGTAAAAACATAAACAAATCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257410 100 -  13858734 cacaagaaagatgaaaataaaatatgag--------------ttTATAAGTTGAAAGATAGCATCTTATATCAAAAATAATTGATCCATAATTGTAAAAACAGAAACAAATCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281416 100 +  32716333 cacaagaaagacgaaaataaaatatgag--------------ttTATACATTGAAAGATAGCATCTTATATCAAAAATAATTGATCCATAATTGTAAAAACAGAAACAAATCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695146 100 - 185818997 cacaagaaagatgaaaataaagtatgag--------------tttacaaaTTGAAAGATAGAATCTTATATCAAAAATAATTGATCCATAATCGTAAAAACAGAAACAAATCGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167329789 100 - 192294377 cacaagaaagatgaaaataaagtatgag--------------tttacaaaTTGAAAGATAGAATCTTATATCAAAAATAATTGATCCATAATCGTAAAAACAGAAACAAATCGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4953426 100 -  30496662 cacaagaaagatgaaaataaagtatgag--------------tttacaaaTTGAAAGATAGAATCTTATATCAAAAATAATTGATCCATAATCGTAAAAACAGAAACAAATCGT
i macNem1.NW_012015021v1    C 0 I 979
s cerAty1.NW_012002954v1     13478250 100 +  21915920 cacaagaaagatgaaaataaagtatgag--------------tttacaaaTTGAAAGATAGAATCTTATATCAAAAATAATTGATCCATAATCGTAAAAACAGAAACAAATCGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19979346 100 -  90373283 cacaagaaagatgaaaataaagtatgag--------------tttacaaaTTGAAAGATAGAATCTTATATCAAAAATAATTGATCCATAATCGTAAAAACAGAAACAAATCGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3483588 100 +   7543664 cacaagaaagatgaaaataaagtatgag--------------tttacaaaTTGAAAGATAGAATCTTATATCAAAAATAATTGATCCATAATCGTAAAAACAGAAACAAATCGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5254551 100 -  13750039 CACAAGAAAGATGAAAATAAAGTATGAG--------------TTTATAAATTGAAAGATAGAATCTTTTATCAAAAATAATTGATCCATAATCGTGAAAACAGAAACAAATCAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26513736 100 +  50472720 CACAAGAAATATGAAAATAAAATGTAAG--------------TTTACAAATTGAAAGACAGCATATTATATCAAAACTAATTGATCCATAATTATAAAAACAGAAACAAATCTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8694824 100 +  13128814 cacaagaaagatgaaaataaaatataag--------------GTTAGAAATTGAAAGATAGCATCTTATATCAAAAATAATTGATCCATAATTATAGAAACAGAAACAAATCGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938540  99 -  14377064 CACAAGTATGATGAAAATAAAACAAAAG--------------TTTACAAATTGAAAGATAGCATCTTATAT-AAAAATAATTGATTCAGAATTATAAAAACAGAAACAAATCCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163537 100 -   9889416 CACAAGAAAGATGAAAATAAAATATAAA--------------TTTACAAGTTGAAAGCCAGCATCTCATATCAAAAATAATTGATCCATAATTTTAAAAACAGAAACAACTTTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23712686 100 +  47401472 CACAAGAGAGATGAAAATAAAACATTAG--------------TTTTTAAATGGAAAGAGAGCTTCTTATATCAAGAATAGTTGATTCATAATTATAAAAATATAAACAAATTCT
i micMur3.chr31             I 4248 C 0
s canFam3.chr31              18059111 110 +  39895921 CATAACAAAAGTAGAAATAAAATATGAGTCTGCAGGCTTGACTTCATAAATTGAAAGGAAACATCTGATATCAAGTG----TTACCCTTAATTGTAAAAATAGAAATAAGTTAT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=647857.000000
s hg38.chr21_GL383579v2_alt    116965 61 +    201197 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAAAAT-ATTTGCACCTCTTCTTAGGTAAAA
s panTro5.chr21               8735811 61 +  33445071 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAAAAT-ATTTGCACCTCTTCTTAGGTAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274927 61 +  46275980 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAAAAT-ATTTGCACCTCTTCTTAGGTAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257510 61 -  13858734 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAAAAT-ATTTGCACCTCTTCTTAGGTAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281516 61 +  32716333 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAAAAT-ATTTGCACCTCTTCCTATGTAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695246 61 - 185818997 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAACAA-ATTTGAACCTCTTCCTATGTAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167329889 61 - 192294377 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAACAA-ATTTGAACCTCTTCCTATGTAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4954505 61 -  30496662 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAACAA-ATTTGAACCTCTTCCTATGTAAAA
i macNem1.NW_012015021v1    I 979 C 0
s cerAty1.NW_012002954v1     13478350 61 +  21915920 ATTACTTTTT-ATGGAACTTTGAAAATAATG-AAAACAA-ATTTGAACCTCTTCCTATGTAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19979446 61 -  90373283 ATTACTTTTT-CTGGAACTTTGAAAA-AATG-AAAAAAATATTTGAACCTCTTCCTATGTAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3483688 61 +   7543664 ATTACTTTTT-ATAGAACTTTGAAAATAATG-AAAACAA-ATTTGAACCTCTTCCTATGTAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5254651 62 -  13750039 ATTACTTTTT-ATGGAACTGTGAAAATAATG-AAAAAAATATTTGAACCTCTTCCTTTGTGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26513836 61 +  50472720 ATTACTTTTT-ATGAAATGTTGAAAATAATG-AAAAAAT-ATTTGAACCTCTTCTTATGGAAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8694924 62 +  13128814 ATTACTTTTT-ATGGAATGTTGAAAATAATGAAAAAAAT-ATTTGAACCTCTTCTTATGGAAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938639 61 -  14377064 ATTACTTTTT-ATGGAATGTTGAAAATAATG-AAGAAAT-ACTTGAACCTCTTCTTATGGAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163637 61 -   9889416 ATTACTTTTT-ATGGAATGTCGAAAATAATG-AAAAAAT-ATTTGAACCTCTTCTTATGGAAAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23712786 62 +  47401472 ATTACTTTTT-ATGAGACTTTGCAAATAAAG-AAGAAATCATTTGAACCTCTTCCTATGTAAAA
i micMur3.chr31             C 0 I 167
s canFam3.chr31              18059221 60 +  39895921 ATTATTTTTTAATGGGGAACTGAAG--AAAG-AAAAATT-ATTTGAACCACTTCATGTTTAAAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=656631.000000
s hg38.chr21_GL383579v2_alt    117026 67 +    201197 --CAAATCTAAGTAATTTATAAGTAGCA-TGATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
s panTro5.chr21               8735872 67 +  33445071 --CAAATCTAAGTAATTTATAAGTAGCA-TGATAACAATATATCAAAATTTCATGGAAAAGTTTTAATAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22274988 67 +  46275980 --CAAATCTAAGTAATTTATAAGTAGCA-TGATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257571 67 -  13858734 --CAAATCTAAGTAATTTATAAGTAGCA-TGATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281577 67 +  32716333 --CAAATCTAAATAATTTATAAGTAGCA-TGATAACAATATATCAAAATTTCGTGGAAAAGTTTTAGTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695307 67 - 185818997 --CAAATTTATGTAATTTGTCAGTAGCG-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167329950 67 - 192294377 --CAAATTTATGTAATTTGTCAGTAGCG-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4954566 67 -  30496662 --CAAATTTATGTAATTTGTCAGTAGCG-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13478411 67 +  21915920 --CAAATTTATGTAATTTGTCAGTAGCG-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19979507 67 -  90373283 --CAAATTTATGTAATTTGTAAGTAGCA-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3483749 67 +   7543664 --CAAATTTATGTAATTTGTCAGTAGCG-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5254713 67 -  13750039 --CAGATTTATGTAATTTGTAAGTAGCA-TAATAACAATATATCAAAATTTCATGGAAAAGTTTTAGTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26513897 67 +  50472720 --CAAATCTATGTAATTTCCAAGTAGCA-TAATAACAACATGTCAAAAGTTCCTGGAAAAGTTTTAGTAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8694986 67 +  13128814 --CAAAGCTATGTAATTTCTAAGTAGAA-TAATAACAACATGTCAAAAGTTCCTGAAAAAGTTTTGGTAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938700 67 -  14377064 --CAAATTTATGTAATTTCTAAGTGGCA-TAATAACAATGTGTCAAAAGTTCATGGAAAAGTTTTAGTAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163698 68 -   9889416 --CAAATCTATGTAGTTTCTAAGTAGCATTAATAACAACGTGTCAAAAGTTCCTGGAAAAGTTTTAGCAC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18059281 66 +  39895921 AAAAAATCTAAGTAACTTATGAGTACAG-TCATCACA---TATCAAAATGGCATAGGACAACTCTAGTTC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23712848 167 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24877663 2846 -  38779656 I

a score=824778.000000
s hg38.chr21_GL383579v2_alt    117093  92 +    201197 ATAAA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAAATTCCGT---ATGTCCTCATCTTGATAACAAACCCATTGTTCATCCAAGCAATTg-aaa-
s panTro5.chr21               8735939  92 +  33445071 ATAAA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAAATTCCGT---ATGTCCTCATCTTGATAACAAACCCATTGTTCATCCAAGCAATTg-aaa-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275055  91 +  46275980 ATAAA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAAATTCCGT---ATGTCCTCATCTTGATAACAAACCCATTGTTCATCCAAGCAATTg--aa-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257638  92 -  13858734 ATAAA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAAATTCCGT---ATGTCCTCATCTTGATAACAAACCCATTGTTCATCCAAGCAATTG-AAA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281644  93 +  32716333 ATAAA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCAT---ATGTCCTCATTTTGATAATAAACCCAATGTTCATCCAAGCAATTGAAAa-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695374  93 - 185818997 ATACA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCAT---TTGTCCTCATTTTGATAATGAACCCAAAGTTCGTCCAAGTAATTGAAAA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330017  93 - 192294377 ATACA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCGT---TTGTCCTCATTTTGATAATGAACCCAAAGTTCGTCCAAGTAATTGAAAA-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4954633  93 -  30496662 ATACA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCAT---ATGTCCTCATTTTGATAATGAACCCAAAGTTCGTCCAAGTAATTGAAAA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13478478  93 +  21915920 ATACA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCAT---ATGTCCTCATTTTGATAATGAACCCAAAGTTCGTCCAAGTAATTGAAAA-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19979574  93 -  90373283 ATACA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCAT---ATGTCCTCATTTTGATGATAAACCCAAAGTTCGTCCAAGTAATTGAAAA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3483816  93 +   7543664 ATACA---TGTCTAAAATTAAT--AAAA----------ATTATG-T-TTTT--TAACTTCCAT---ATGTACTCATTTTGATAATGAACCCAAAGTTCGTCCAAGTAATTGAAAA-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5254780  93 -  13750039 ATACA---TGTCTAAAATTAAT--ATAA----------ATTATG-T-TTTT--TAACTTCCAT---ATGTCCTCATTTTGATAATAAGCCCAAAGTTCGTCCAAGTAATTGAAAA-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26513964 102 +  50472720 ATAAA---TATCTAGCATTGAT---TGTTAAAAAAATAATTATGTT-TTTT--TAACTTCCAC---AGGCCCTCATTTTGATAATAAGCCAAATGTTCATCCACGTAATTG-AAA-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695053  92 +  13128814 ATAAA---TATCTAGAATTGGT--ATGT----------ATTATG-T-TTTT--TAACTGCCAC---AGGCCCTCATTTTGATAATAAGCCCAATGTTCATCCAGGTAATTg-aaa-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938767  92 -  14377064 ATAAA---TATCTGGAATTGAT--ATCA----------ATTATG-T-TTTT--TAACTTCCAC---AGGCCCTCATTTTGATAATAAGCCGAATGTTCATTCATGTAATTG-AAA-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163766  92 -   9889416 ATAAA---TATCTAGAATTGAT--ATCA----------ATTATG-T-TTTT--TAACTTCCCC---AAGCCCTCATTTTGATAGTAAGACCAATGTTCATCCAAGTAATTg-aaa-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24880509  89 -  38779656 ATAAA---TGTAGAGGAAAAAT--ATAA----------ATAGTT-C-TTTTAAAAACTTTCAT---ATATTCTGATTT---CAGTAAGTCCAATGTTCAGCCTACTCAT---AAA-
i otoGar3.GL873528          I 2846 I 2
s canFam3.chr31              18059347 100 +  39895921 ACAAATGTTGTCCAAAATAAATACATAA----------ATAATA-TCTCTT--TAACTCTCCTGAAGTGTCTCAATTTGGTTAATAAATCAAGTTTTCACCcaagtcat---aaag
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23712848 167 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=1184213.000000
s hg38.chr21_GL383579v2_alt    117185 102 +    201197 aaaaaatcagattggccttggatttctctagagtcatttgcagtaccagtagactgtaaagATC-TTAGATAGTTTCACGCGAACTTCTGCAAAATATAA---AAT
s panTro5.chr21               8736031 102 +  33445071 aaaaaatcagattggcctttgatttctctagagtcatttgcagtaccagtagactgtaaagATC-TTAGATAGTTTCACGCGAACTTCTGCAAAATATAA---AAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275146 102 +  46275980 aaaaaatcagattggcctttgatttctctagagtcatttgcagtaccagtagactgtaaagATC-TTAGATAGTTTCACGCGAACTTCTGCAAAATATAA---AAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257730 102 -  13858734 AAAAAATCAGATTGGCCTTGGATTTCTGTAGAGTCATTTGCAGTACCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGCAAACTTCTGCAAAATATAA---AAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281737 102 +  32716333 aaaaaatcagattggccttggatttctctagagtcatttgcagtaccagtagactgtaaagATC-TTAGACAGTTTCACGTGAACTTCTGCAAAATATAA---AAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695467 105 - 185818997 GAAAAATCAGATTGGTCTTGGATTTCTCTAGAGTCATTCGCAGTAGCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGTGAACTTCTGCAAAATATGAAATAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330110 105 - 192294377 GAAAAATCAGATTGGTCTTGGATTTCTCTAGAGTCATTCGCAGTAGCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGTGAACTTCTGCAAAATATGAAATAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4954726 105 -  30496662 GAAAAATCAGATTGGTCTTGGATTTCTCTAGAGTCATTCGCAGTAGCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGTGAACTTCTGCAAAATATGAAATAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13478571 102 +  21915920 GAAAAATCAGATTGGTCTTGGATTTCTCTAGAGTCATTCGCAGTAGCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGTGAACTTCTGTAAAATATGA---AAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19979667  98 -  90373283 GAAAAATCAGATTGGTCTTGGATTTCTCTAGAGTCTTTTGCAGTACCAGTAGACTGTAAAGATC-TT----AGTTTCACGTGAACTTCTGCAAAATGTGA---AAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3483909 102 +   7543664 GAAAAATCAGATTGGTCTTGGATTTCTCTAGAGTCATTCGCAGTAGCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGTGAACTTCTGCAAAATATGA---AAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5254873 102 -  13750039 GAAAAATCAGATTAGACTTGGATTTCTCTAGAGCCATTTGCAGTACCAGTAGACTGTAAAGATC-TTAGACAGTTTCACGTGAACTTGTGCAAAATGTGA---AAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514066 102 +  50472720 AAACAATCAGATTGGCTTTGGATTTCTCTAGAGCCATTTGCTGTACCAGTAGACTGCAAAGATA-TTAGACAGTTTCATGAAGACTTCTCCAAAATACAA---AAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695145 100 +  13128814 aa--aatcagattggctttggatttctctaaagccatttgctgtaccagtagactgtaaagATC-TTAGGCAGTTTCATGAAGACTTCTCCAAAATAGAA---AAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938859 101 -  14377064 AAA-AATCAGATTGGCTTTGGATTTCTCTAGAGCCATTTGCTGTACCAGTAGGCTATAAAGATC-TTAGACAGTTTCATGAAGACTTCTCCAAAATATAA---AAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163858 102 -   9889416 aaaaaatcagattggctttggatttctctagagccatttgctgtaccagtagactgtgaagATC-TTAGACAGTTTCATGAAGACTTCTCCAAAATATAA---AAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23713015 102 +  47401472 aaaatatcagattgaccttagatttctccagagccatgtgcagtaccagtagactgtcaagATC-TTAGAGGGTTTCATAAAGGCTTCTGCAAAAAATAA---AAT
i micMur3.chr31             I 167 C 0
s otoGar3.GL873528           24880600 101 -  38779656 AAAATACCAGATTGA-CTTATATTTCACCA-AGCCATTTGAAGTACCAGTAGATGGTTAAGATCTTTAAAAGGTTTCTTAAAGACATCTGCAAAACATCA---AAT
i otoGar3.GL873528          I 2 I 163
s canFam3.chr31              18059447 101 +  39895921 gaaatatcaggttggccttacatttctccagagccactttcag-agcagcagactgtaaagctc-ttaaaagattttaaaagaaCTCTTTCAAACTACAG---ATT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=2103491.000000
s hg38.chr21_GL383579v2_alt    117287 194 +    201197 -AAAA------------AAAAAA-T--TTGCACCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCT----AG----GGCACGT--GCATTGACCTAATTCCCTCCTGAATAAATATACAGCC-----AAAAGTCCCTCAAACAA---------AAAATGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCTTTAAATGGAAATTTAATGGAGACAAAACATCC
s panTro5.chr21               8736133 195 +  33445071 -AAAA------------AAAAAAAT--TTGCACCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCT----AG----GGCACGT--GCATTGACCTAATTCCCTCCTGAATAAATATACAGCC-----AAAAGTCCCTCAAACAA---------AAAATGAATGCTAAATAATCCTACTTGTATCTCTATATACTCTTTAAATGGAAATTTAATGGAGACAAAACATCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275248 193 +  46275980 -AAAA------------AAAAA--T--TTGCACCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCT----AG----GGCACGT--GCATTGACCTAATTCCCTCCTGAATAAATATACAGCC-----AAAAGTCCCTCAAACAA---------AAAATGAATGCTAAATAATCCTACTTGTATCTCTATATACTCTTTAAATGGAAATTTAATGGAGACAAAACATCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8257832 193 -  13858734 -AAAA------------AAAAA--T--TTGCACCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCT----AG----GGCACGT--GCATTGACCTAATTCCCTCCTGAATAAATATACAGCC-----AAAAGTCCCTCAAACAA---------AAAATGAATGCTAAATCATCCTACTTGTATCTCTATATACTCTTTAAATGGAAATTTAATGGAGACAAAACATCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9281839 193 +  32716333 -AAAA------------AAAAA--T--TAGCAGCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCT----AG----GGCATGT--GCATTGACATAATTCCCTCCTGAATAAATATACAGCC-----AAAAGTCCCTCAAACAA---------AAAATAAATGCTAAATAATCCTACTTGTATTTCTGTATACTCTTTCAATGGAAATTTAATGGAAACAAAACATCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695572 199 - 185818997 -TAAA------------AAAAA--T--TTGCAGCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCC----AG----AGCATGT--GCATTGACATAATTTCCTCCCGAACAAATAAACGGCC-----AAAAGTCCCTCAAACAAAC-AAAC--AAAAAGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCTTTAAATTGAAATTTAATGGAAACAAAACATCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330215 199 - 192294377 -TAAA------------AAAAA--T--TTGCAGCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCC----AG----AGCATGT--GCATTGACATAATTTCCTCCCGAACAAATAAACGGCC-----AAAAGTCCCTCAAACAAAC-AAAC--AAAAAGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCTTTAAATTGAAATTTAATGGAAACAAAACATCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4954831 199 -  30496662 -TAAA------------AAAAA--T--TTGCAGCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCC----AG----AGCATGT--GCATTGACATAATTTCCTCCCGAACAAATAAATGGCC-----AAAAGTCCCTCAAACAAAC-AAAC--AAAAAGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCTTTAAATTGAAATTTAATGGAAACAAAACATCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13478673 199 +  21915920 -TAAA------------AAAAA--T--TTGCAGCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCC----AG----AGCATGT--GCATTGACATAATTTCCTCCCGAACAAATAAACGGCC-----AAAAGTCCCTCAAACAAAC-AAAA--AAAAAGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCtttaaattgaaatttaatggaaacaaaacatcc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19979765 201 -  90373283 -TAAA------------AAAAAT-T--TTGCAACTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCC----AG----AGCATGT--GCATTGACATAATTTCCTCCCGAACAAATAAACGGCC-----AAAAGTCCCTCAAACAAGCAAAAA--AAAAAGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCTTTAAATTGAAATTTAATGGAAACAAAACATCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484011 199 +   7543664 -TAAA------------AAAAA--T--TTGCAGCTCTGCTACTCTGATGAATACACAGCCAAAAT-ATAGCCC----AG----AGCATGT--GCATTGACATAATTTCCTCCCGAACAAATAAACGGCC-----AAAAGTCCCTCAAACAAAC-AAAC--AAAAAGAATGCTAAATAATCCTACTTGTATCTCTGTATACTCTTTAAATTGAAATTTAGTGGAAACAAAACATCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5254975 202 -  13750039 -TAAA------------AAAAAA-T--TTGCAGCTCTGCTACTCTGTTGAATACTCAGCCAAAAT-ATAGCCT----AG----GGCATGT--GCATTGACATAATTTCCTCCTGAACAAATATAGGGCC-----AAAAGTCCCTcaaacaaac-aaacaaaaaaagaaTGCTAAATAATCCTACTTGTATCTCTATATACTCTTTAAATTGAAATTTAATGGAAACAAAACATCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514168 190 +  50472720 -TAAA------------AAAAA--AATTTGTAGCTTTGCTACTCTGATGAATATGCTGCGAAAATTATAATGT----AG----GATATGT--GTATTGATGTAATTTCTTCCTGAACAAATATACAGCC-----AAAAGACCCTCAAACA---------------AAATGCTAGATAATCCTACTTGAATCTCTATATACTCTTTAAACTGAAATTTAATGGAAACAAAACATAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695245 195 +  13128814 -TTAA------------AAAAA--AA-TTACAGCTTTGCTACTCTGATGAATATGCTTCCAAAATTATAACCT----AG----GATATGT--GTATTGATACAATTTCCTTCTGAACAAATATACAGCC-----GAAAGTCCCTCAAACAG---------AAAATGAATGCTAAATAATCCTACTTGAATCTCTATATACTCTTTACATTGAAATTTAATGGAAACAAAACATAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13938960 195 -  14377064 -TAAA------------AAAAA--AA-TTGCAGCTTTGCTACTCTGATGAATATGCTGCCAAAATTATAACCT----AG----GATATAT--GTATTGATATAATTTCCTCCTGAACAAATATACAGCC-----AAAAGTCCCTCAAACAG---------AAAATGAATGCTAAATAATCCTACTTGAATCTCTATATACTCTTTAAATTGAAATTTAATGGAAGCAAAACACAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9163960 194 -   9889416 -TTGA------------AAAAA--T--TTGCAACTTTGCTACTCTGATGAATATGCTGCCAAAATAATAACCT----AG----GATATGT--GCATTGATATAATTTCCTCCTGAATAAATATACAGCC-----AAAAGTCCCTCAAACAG---------AAAATGAATGCTAAATAATCCTACTTGAATCTCTATATACTCTTTAAATTTAAATTTAATGGAAACAAAACATAC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23713117 195 +  47401472 -----------------TAATA--T--TTTCATCTTTGCTACTCTGATGAATAAGCAGCCAAAAT-ATAGCCT----AGCCCTAGGGCATAGGAGTTAACATAGTTTCTTCTTGAATGAAGATACAGCC-----AAAATTCCCTCACACAG---------AAAATGAATGCTAAATAATTCTGCCCCTATCTCTATACACTCTTTAAATTGAATTTTAATGGCAGCAAAACATCC
i micMur3.chr31             C 0 I 205
s otoGar3.GL873528           24880864 178 -  38779656 -aaaaaaaaaTTAAAATTAATA--T--TTCTATCTTTGCTACTCTCATAAATAAGCAGCTAAAAT-ATAGCCT----AG----AGAACAT--GAGTTAACATAGTTTCTTCTTGAATGAATATACAGCC------AAATTCCCTCA----------------------------------CTGCCTATATCTCTACACACTCTTTAAATCTAATTTTAAT-GCAGCAAAATATCC
i otoGar3.GL873528          I 163 C 0
s canFam3.chr31              18059548 192 +  39895921 GAAAT------------TAACA--T--TTTCAACTCCGGTGCTCTGATGAATAAGTAGCCAAAAT-ATAGTCTCAAGAG----GGCACGT--GGGTTAACATAACTTCCTCCTGAATGAATGTATAGCTTCCTGTAAATTCCCTCAAAT-----------AGAAAGAATACTAAATAGTCTAATCCGTA---------GCTCTTTATATTAAATTTTAATGGCAATAAAACATCC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=913850.000000
s hg38.chr21_GL383579v2_alt    117481  98 +    201197 CCATACAA----ATTGAAAATTGAGA----------------------------------ATACGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCCTGTATGTAATGTATATAATATGTTGCTAAG-AAACAGGGAAATGATTTCATTTCTC
s panTro5.chr21               8736328  98 +  33445071 CCATACAA----ATTGAAAATTGAGA----------------------------------ATACGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCCTGTATGTAATGTATATAATATGTTGCTAAG-AAACAGGGAAATGATCTCATTTCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275441  97 +  46275980 CCATACAA----ATTGAAAATTGAGA----------------------------------ATACGTGT-------------------TTAA-TTTT-----------------------------------------------------------TTCCTGTATGTAATGTATATAATATGTTGCTAAG-AAACAGGGAAATGATCTCATTTCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258025  98 -  13858734 CCATGCAA----ATTGAAAATTGAGA----------------------------------ATACGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCCTGTATGTAATGTATATAATATGTTGCTAAG-AAACAGGGAAGTGATCTCATTTCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282032  98 +  32716333 CCATACAA----ATTGAAAATTGAGA----------------------------------ATATGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCCTGTATGTAATGTATATAATATGTTGCTAAG-AAACAGGGAAATGATCTCATTTCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695771  98 - 185818997 ACATACAA----ATTGGAAATTGAGA----------------------------------ATGTGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCTTGTATGTAATGTATATAATATGTTGCTGAG-AAACAGGGAAATGGTCTCATTTCTC
i rheMac8.chr3              C 0 I 42
s macFas5.chr3              167330414  98 - 192294377 ACATACAA----ATTGAAAATTGAGA----------------------------------ATGTGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCTTGTATGTAATGTATATAATATGTTGCTGAG-AAACAGGGAAATGGTCTCATTTCTC
i macFas5.chr3              C 0 I 32
s macNem1.NW_012015021v1      4955030  98 -  30496662 ACATACAA----ATTGAAAATTGAGA----------------------------------ATGTGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCTTGTATGTAATGTATATAATATGTTGCTGAG-AAACAGGGAAATGGTCTCATTTCTC
i macNem1.NW_012015021v1    C 0 I 42
s cerAty1.NW_012002954v1     13478872  98 +  21915920 acatacaa----attgaaaattgaga----------------------------------atGTGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCTTGTATGTAATGTATATAATATGTTGCTGAG-AAACAGGGAAATGGTCTCATTTCTC
i cerAty1.NW_012002954v1    C 0 I 42
s chlSab2.chr2               19979966  97 -  90373283 ACATAC-A----ATTGAAAATTAAGA----------------------------------ATGTGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCTTGTGTGTAATGTATATAATATGTTGCTGAG-AAACAGGGAAATGGTCTCATTTCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484210  98 +   7543664 ACATACAA----ATTGAAAATTGAGA----------------------------------ATGTGTGT-------------------TTAATTTTT-----------------------------------------------------------TTCTTGTATGTAATGTATATAATATGTTGCTGAG-AAACAGGGAAATGGTCTCATTTCTC
i manLeu1.NW_012103476v1    C 0 I 42
s colAng1.NW_012120598v1      5255177  93 -  13750039 ACATACAA----ATTGAAAATTGAGA----------------------------------ATGTGTG------------------------TTTTT-----------------------------------------------------------TTGTTGTATGTAATGTATATAATATGTTGCTAAG-AAACAGGGAAATGGTCTCATTTCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514358  96 +  50472720 TTATA--A----ACTGAAAATTGAAA----------------------------------TTGCGTGC-------------------TTAATATTT-----------------------------------------------------------CTTCTGTTTGTAATGTATATAATATGTTGCTAAG-AAATAGGAAAATGGTCTCATTCCTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695440  98 +  13128814 TTATAC-A----AACCAAAACTGAGA----------------------------------ATGTGTGT-------------------TTAATATTT-----------------------------------------------------------CTTCTGTTTGTAATGTATATAATATGTTGCTAAGAAAATAGGGAAATGGTCTTATTCCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939155  98 -  14377064 TTATACAA----AGTGAAAATTGAGA----------------------------------ATGGGTGT-------------------TTAATATTT-----------------------------------------------------------CTTCTGTTTGTAATGTATATAATATGTTGCTAAG-AAATAGGAAAATGGTCTCATTCTTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164154  98 -   9889416 TTATACAA----ACTGAAAATTGAGA----------------------------------ATGTGTGT-------------------TTAATATTT-----------------------------------------------------------CTTCTGTTTGTAATGTATATAATATGTTGCTAAG-AAATAGGGAAATGGTCTCATTCCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881042 166 -  38779656 --ATATCA----ATTTAAAAATGTGT----------------------------------ATTTGTATGTGGATGAATTCAGTCCTCTTAATTTTTATAAAGTGTTGAT------TTTTCTTCTTTTCAGTTT--TCTGTATTACAGTTTATCTATTCTTGTTTGTAAAGAATATAATGAATTAATAAG-AAACAGGGAGATTGTCTCACTGCTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18059740 189 +  39895921 ----ACAAGACTACTGAAAATTGTGAAATTGGATATGTGAATGTATGTATTCAGTTCAATATATGTAT-------------------TCAATTTTC--CTAGTTCTTATAACACACTTTCTTCTTTCAGTTTTACTCTGTATGATATTCGGTCTTTTCCTGTTTATATATTGCATAAAATACTGCTAAG-AAATAGAAAAATTGCCTCATTCCTC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23713312 205 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=32240.000000
s hg38.chr21_GL383579v2_alt    117579 4 +    201197 TTAC
s panTro5.chr21               8736426 4 +  33445071 TTAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275538 4 +  46275980 TTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258123 4 -  13858734 TTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282130 4 +  32716333 TTAC
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167330544 4 - 192294377 TTAT
i macFas5.chr3              I 32 I 6
s chlSab2.chr2               19980063 4 -  90373283 TTAC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5255270 4 -  13750039 TTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514454 4 +  50472720 TTAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695538 4 +  13128814 TTAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939253 4 -  14377064 TTAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164252 4 -   9889416 TTAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881208 4 -  38779656 TTAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18059929 4 +  39895921 TTAC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23713312 205 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e cerAty1.NW_012002954v1     13478970 42 +  21915920 I
e macNem1.NW_012015021v1      4955128 42 -  30496662 I
e rheMac8.chr3              160695869 42 - 185818997 I
e manLeu1.NW_012103476v1      3484308 42 +   7543664 I

a score=382583.000000
s hg38.chr21_GL383579v2_alt    117583 38 +    201197 TACCTATCCGTATTTGGTATAATTTATAAGTAGTTAAA
s panTro5.chr21               8736430 38 +  33445071 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275542 38 +  46275980 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258127 38 -  13858734 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282134 38 +  32716333 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695911 38 - 185818997 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i rheMac8.chr3              I 42 C 0
s macFas5.chr3              167330554 38 - 192294377 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i macFas5.chr3              I 6 C 0
s macNem1.NW_012015021v1      4955170 38 -  30496662 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i macNem1.NW_012015021v1    I 42 C 0
s cerAty1.NW_012002954v1     13479012 38 +  21915920 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i cerAty1.NW_012002954v1    I 42 C 0
s chlSab2.chr2               19980067 38 -  90373283 TACCTATCCATATTTGGTATAATTTGTAAGTAGTTAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484350 38 +   7543664 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i manLeu1.NW_012103476v1    I 42 C 0
s colAng1.NW_012120598v1      5255274 38 -  13750039 TACCTATCCATATTTGGTATAATTTATAAGTAGTTAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514458 37 +  50472720 TATC-AACCATATTTGGTATAATTTATCAGTAGTTGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695542 38 +  13128814 TACCTAACAGTATTTGGTGTAATTTATCAGTAATTAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939257 38 -  14377064 TACCTAACTGTATTTGGTATAATTTATCAGTAATTAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164256 38 -   9889416 TACCTAACTGTATTTGGTATAATTTATCAGTAGTTAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881212 29 -  38779656 TAGCTATCACTATTTAGCATATTCTATAA---------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18059933 22 +  39895921 TCCCTATCAGTACTCTGCATAA----------------
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23713312 205 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=934687.000000
s hg38.chr21_GL383579v2_alt    117621 71 +    201197 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGCCAAAATAAGATGAGAGAA-AATACAAGGTAC
s panTro5.chr21               8736468 71 +  33445071 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGCCAAAATAAGATGAGAGAA-AATACAAGGTAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275580 71 +  46275980 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGCCAAAATGAGATGAGAGAA-AATACAAGGTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258165 71 -  13858734 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGCCAAAATAAGATGAGAGAA-AATACAAGGTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282172 71 +  32716333 AATAGTTAATGTGAATTAACAGTGAAAATATTATGTCTTGCCAAAATAAGATGAGAGAA-AATACAAGGTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160695949 71 - 185818997 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGTCAAAATAAGATGAGAGAA-AATACAAGATAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330592 71 - 192294377 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGTCAAAATAAGATGAGAGAA-AATACAAGGTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955208 71 -  30496662 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGTCAAAATAAGATGAGAGAA-AATACAAGGTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479050 71 +  21915920 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGTCAAAATAAGATGAGAGAA-AATACAAGGTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980105 71 -  90373283 AATAGTTAATGTGAATTAACAGTGGAAATATTACGTCTTGTCGAAATAAGATGAGAGAA-AATACAAGGTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484388 71 +   7543664 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGTCAAAATGAGATGAGAGAA-AATACAAGGTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255312 71 -  13750039 AATAGTTAATGTGAATTAACAGTGGAAATATTATGTCTTGTCAAAATAAGATGAGAGAA-AATACAAGGTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514495 71 +  50472720 AATAGTTAATGTGAAGTAACAGTGGAAATATTATCTCTTGTCAAAATAAGATGAGAGAA-AATACAATGTAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695580 71 +  13128814 AATAGTTAATGTGAAACAGCAGTGGAAATATTATCTCTTGTCAAAATCAGATGAGAGAA-AATACAATGTAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939295 71 -  14377064 AATAGTTAATATGAAATAACAGTGAAAATATTATCTCTTGTCAAAATAAGATGAGAGAA-AATACAATGTAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164294 71 -   9889416 AATAGTTAATATGAAATAACAGTGGAAATATTATCTCTTGTCATAATAAGATGAGAGAA-AATACAATGTAC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23713517 70 +  47401472 AATAGTTAATGTGAATTAACAGTAAACATATTACCT-CTCCCAAAATAAGATCAGAGAA-AATACAATGTAC
i micMur3.chr31             I 205 I 43
s otoGar3.GL873528           24881241 70 -  38779656 -ATAGTTAATGTGGATTAACAGCAAAGATATTATGTCCTGCCAAAGTAAGATTAGAGAA-CATACAATGTAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18059955 71 +  39895921 -ATAGTTGACATGAATTAATAGCAATCATGCTACCTCCAGCCAAAATAAGATGAAAAAAGAAAACAATGTAT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=346801.000000
s hg38.chr21_GL383579v2_alt    117692 37 +    201197 CACCTCTATCCACCCAT--TACACTTAATATTTGACAGT
s panTro5.chr21               8736539 37 +  33445071 CACCTCTATCCACCCAT--TACACTTAATATTTGACAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275651 37 +  46275980 CACCTCTATCCACCCAT--TACACTTAATATTTGACAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258236 37 -  13858734 CACCTCTATCCACCCAT--TACACTTAATATTTGACAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282243 37 +  32716333 CACCTCTATCCACCCAT--TACACTTAATATTTGACAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696020 39 - 185818997 CACCTCTATCCACCTGTAATCCACTTAATATTTGACAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330663 39 - 192294377 CACCTCTATCCACCTGTAATCCACTTAATATTTGACAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955279 39 -  30496662 CACCTCTATGCACCTGTAATCCACTTAATATTTGACAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479121 39 +  21915920 CACCTCTATCCACCTGTAATCCACTTAATATTTGACAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980176 39 -  90373283 CACCTCTATCCACCTGTAATCCACTTAACATTTGACAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484459 39 +   7543664 CACCTCTATCCACCTGTAATCCACTTAATATTTGACAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255383 39 -  13750039 CACCTCTATCCACCTGTAATCCACTTAATATTTGACAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514566 36 +  50472720 AA-CTTTACTCGCCCAT--TACACATAATATTTGACAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695651 36 +  13128814 AA-CTTTACTCACCCAT--TACACTTAATATTTGACAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939366 36 -  14377064 AG-CTTTACTCACCCAT--TACACTTAATATTTGACAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164365 36 -   9889416 CA-CTTTTCTCATTCAT--TACACTTAATATTTGACAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881311 37 -  38779656 AACCTCTATTCACCTGT--TACACTTGATGTTTAACAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18060026 37 +  39895921 ATTCTCCATCCACCTAT--CACACTTGATATTTGAAAGT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23713587 43 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=128860.000000
s hg38.chr21_GL383579v2_alt    117729 13 +    201197 AAGTTTGTTTGCA
s panTro5.chr21               8736576 13 +  33445071 AAGTTTGTTTGCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275688 13 +  46275980 AAGTTTGTTTGCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258273 13 -  13858734 AAGTTTGTTTGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282280 13 +  32716333 AAGTTTGTTTGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696059 13 - 185818997 AAGTTTGTTTGCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330702 13 - 192294377 AAGTTTGTTTGCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955318 13 -  30496662 AAGTTTGTTTGCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479160 13 +  21915920 AAGTTTGTTTGCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980215 13 -  90373283 AAGTTTGTTTGCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484498 13 +   7543664 AAGTTTGTTTGCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255422 13 -  13750039 AAGTTTGTTTGCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514602 13 +  50472720 AATTTTCTTTGCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695687 13 +  13128814 AAGTTTCTTTGCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939402 13 -  14377064 AAGTTTCTTTGCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164401 13 -   9889416 AAGTTTCTTTGCA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18060063  8 +  39895921 AAGTTCAC-----
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23713587 43 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24881348  0 -  38779656 C

a score=4274087.000000
s hg38.chr21_GL383579v2_alt    117742 419 +    201197 AGAAGATAGCAAGTCTACTAAATCCTGAAATGTCTTGTGTAGCATGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGCAAATATGATAAACATTTTAATCAGAGGTGAGAAATAAACATTTTAATCAGCGGTAAGAAATTTAATAGACTTTGAGCCCAGCCCTATAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCATATGGTATAAGCC----TATATATAATATTATTAAATTATACATGGAAAATAATAAACACCATATTAATATTAGC---TGTTATTATTATATGAGCCATattc--aa-tgaatgtttgtcagagttcttcagtggcaggcaaaattctgagtactatataccagtgaccaaagcaaagagtcttcccgttgtgaa
s panTro5.chr21               8736589 419 +  33445071 AGAAGATAGCAAGTCTACTAAATCCTGAAATGTCTTGTGTAGCATGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGCAAATATGATAAACATTTTAATCAGAGGTGAGAAATAAACATTTTAATCAGCGGTAAGAAATTTAATAGACTTTGAGCCCAGCCCTATAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCATATGGTATAAGCC----TATATATAATATTATTAAATTATACATGGAAAATAATAAACACCATATTAATATTAGC---TGTTATTATTATATGAGCCATattc--aa-tgaatgtttgtcagagttcttcagtggcaggcaaaattctgagtactatataccagtgaccaaagcaaagagtcttcccgttgtgaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22275701 419 +  46275980 AGAAGATAGCAAGTCTACTAAATCCTGAAATGTCTTGTGTAGCATGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGCAAATATGATAAACATTTTAATCAGAGGTGAGAAATAAACATTTTAATCAGCGGTAAGAAATTTAATAGACTTTGAGCCCAGCCCTATAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCATATGGTATAAGCC----TATATATAATATTATTAAATTATACATGGAAAATAATAAATACCATATTAATATTAGC---TGTTATTATTATATGAGCCATattc--aa-tgaatgtttgtcagagttcttcagtggcaggcaaaattctgagtactatataccagtgaccaaagcaaagagtcttcccgttgtgaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258286 417 -  13858734 AGAAGATAGCAAGTCTACTAAATCCTGAAATGTCTTGTGTAGCATGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAGATTTGAAACAGCAAATATGATAAACATTTTAATCAGAGGTGAGAAATAAACATTTTAATCGGTGGTAAGAAATTTAATAGACTTTGAGCCCAGCCCTATAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTC--ATGGTATAAGCC----TATATATAATATTATTAAATTATACATGGAAAATAATAAACACCATATTAATATTAGC---TGTTATTATTATATGAGCCATattc--aa-tgaatgtttgtcagagttcttcagtggcaggcaaaattctgagtactatataccagtgaccaaagcaaagagtcttcccgttgtgaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282293 419 +  32716333 AGAAGACAGCAAGTCTACTAAAACCTGAAATGTCTTGTGTAGCATGAAAAATGCCATTTGCTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGCAAATATGATAAACATTTTAATCAGAGGTGAGAAATAAACATTTTAATCAGAGGTGAGAAATTTAATAGAGTTTGAACCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCATATGGTATAAGCC----TATATATAATATTATTAAATTATATATGGAAAATAATGAACACCATATTAATATTAGC---TGTTATTATTATATGAGCCATattc--aa-cgaatgtttgtcacagttcttcagtggaaggcaaaattctgagtactatataccagtgaccaaagcaaagagtcttcccattgtgaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696072 392 - 185818997 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTATAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTGAAATTTGAAACAGGACATATGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATATACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCACATCATATAAGCC----TatatataatattattacattatacatggaaaatattaaacatcatattaacattaaC---TGTTATTATTATATGAGCCAcattc--aa-tgaatgtttttcagagatcttcaatggcaggcaaaattttgagcactatgtaccagtgaccaaagcaaagagtcttccc-ttgtgaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167330715 392 - 192294377 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTATAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTGAAATTTGAAACAGGACATATGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATATACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCACATCATATAAGCC----TatatataatattattacattatacatggaaaatattaaacatcatattaacattaaC---TGTTATTATTATATGAGCCAcattc--aa-tgaatgtttttcagagatcttcaatggcaggcaaaattttgagcactatgtaccagtgaccaaagcaaagagtcttccc-ttgtgaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955331 392 -  30496662 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTATAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTGAAATTTGAAACAGGACATATGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATATACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCACATCATATAAGCC----TatatataatattattacattatacatggaaaatattaaacatcatattaacattaaC---TGTTATTATTATATGAGCCAcattc--aa-tgaatgtttttcagagatcttcaatggcaggcaaaattttgagcactatgtaccagtgaccaaagcaaagagtcttccg-ttgtgaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479173 392 +  21915920 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTGTAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTGAAATTTGAAACAGGACATACGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATAGACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCACATCATATAAGCC----TATATATAATATTATTACATTATACATGGAAAATATTAAACATCATATTAACATTAAC---TGTTATTATTATATGAGCCAcattc--aa-tgaatgtttttcagagatcttcaatggcaggcaaaattttgagcactatgtaccagtgaccaaagcaaagagtcttctc-ttttgaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980228 392 -  90373283 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTGTAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGGACATATGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATAGACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAATACTGACATCACAGGGTTTTGACTCACATCATAGAAGCC----TATATATAACATTATTACATTATACATGGAAAATATTAAATACCATATTAACATTAAC---TGTTATTATTATATGAGCCACAGTC--AA-TGAATGTTTTTCAGAGATCTTCAATGGCAGGTAAAATTTTGAGCACTATGTACCAGTGACCAAAGCAAAGAGTCTTCCC-TTGTGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484511 392 +   7543664 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTGTAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGGACATATGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATAGACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCACATCATATAAGCC----TATATATAATATTATTACATTATACATGGAAAATATTAAGCATCATATTAACATTAAC---TGTTATTATTATATGAGCCAcattc--aa-tgaatgtttttcagagatcttcaatggcaggcaaaattttgagcactatgtaccagtgaccaaagcaaagagtcttccc-ttgtgaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255435 395 -  13750039 AGAAGATAGCAAGTCTACTAAAACCTGAAATATCTTCTGTAGCGTGAAAAATGCCATTCACTTTTCTAA-TATTTTGTCTCAAATTTGAAACAGGACATACGATAAACATTTTAATCAGAGGTG--------------------------AGAAATTTAATAGACTTTGAGCCCAGCCCTACAAATAATAACTGTGAGGTCACTATTAGTACTGACATCACAGGGTTTTGACTCATATCGTATAAGCC----TATATATAATATTATTACATTATACATGCAAAATATTAAACACCATATTAACATTAACTGTTGTTATTATTATATGAGCCAcattc--ga-tgaatgttttacagagatcttcaatggcaggcaaaattttgagcactatgtaccagtgaccaaagcaaagagtcttccc-ttgtgaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26514615 393 +  50472720 AGGAGACAGCAAGTCTACTAAAACCTGAAAGGTCTTATGTAGTATAAAACATGTCATTCAATTTTCTAA-TTTTTTTTCTCAAATTTGAAACAGCAAATATGATGAACGTTTTAATTAGAGTTA--------------------------AGAAATTTAACAGACTTTGATCCCAGCCCTACAAATAATAACAGTAAGGACATTGATAGTACTGACATCACAGGCTTTTGATTTGTATGGTATAAGAC----TATATACAATATTGTTAAATTATACATGGAAAACAATAAACACCATATTAACATTAGC---TCTTATTACTATATAAGCCATAACC--AA-TGAATGTTTATCAGAGTTCTTCAATGGTTGGCAAAGTTTTAAGCACTATACGCCAGTGACCAAAGCAAAGAGTCTTCCCATTGTGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8695700 390 +  13128814 AGAAGGCAGCAAGTCTACTAAAACCTGAAAGGCCTTGTGTAGTATAAAACATGTCACTCAATTTTCTAATTTTTTTTTCTCAAATTTGAAACAGCAAATATGATGAACATT----TTAGAGGTA--------------------------AGGAATTTAACAGACTTTGATCCCAGCCCTACAAATAATAACAGTAAGGACACTGTTAGTACTGACATCACAGGCTTTTGATTTGTATGGTATAAGAC----TATATACAATATTGTTACATTATACATGGAAAATAATAAACACCATATTAACATTAGC---TCTTATTATTATATAAGCCGTAGtc--aa-ttaatgtttatcagagttcttcagtggctggcaaagttttaagcactgtatgccagtgaccgaagcaaagagtcttcccatcatgaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939415 392 -  14377064 AGAAGACAGCAAGTCTACTAAAACCTGAAAGGTCTTGTGTAGTATAAAACA--TCATTCAATTTTCTAATATTTTTTTCTCAAATTTGAAACAGCAAATATGATGAATATTTTAATTAGAGGTA--------------------------AGAAATTTAACGGACTTTGATCCCAGCCCTGCAAATAATAACAGTAAAGACATTGTTAGTACTGACATCACGGGCTTTTGATTGGTATGGTATAAGAC----TATATACAGTATTGTTAAATTATACATGGAAAATAATAAACACCATATTAACATTAGC---TCTTATTATTATATAAGCCATAAtc--aa-tgaatgtttataagagttcttcagtggctgacaaagttttaaacactatatgccagtgaccaaagcaaagagtcttcccattgtgaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164414 393 -   9889416 AGAAGATAGCAAGTCTACTAAAACCTGAAAGGTCTTGTGTAGTATAAAAGATGTCATTCAATTTTCTTA-TATTTTTTCTCAAATTTGAAACAGCAAATATGATGAACATTTTAATTAGAGGTA--------------------------AGAATTTTAACAGACTTTGGGCCCAGCCCTACAAATAATAACGGTAAGGACATTGTTATTACTGACATCACAGGGTTTTGATTTGTATGGTATAAGCC----TATATATAATATTGTTAAATTATACATGGAAAATAATAAACACCATGTTAACATTAGC---TGTTATTATTATATGAGCCATAAtc--aa-tgaatacttatcagagttcttcagtggctggcaaagttctacgcactatataccagtgaccaaaccaaagagtcttcccatcatgaa
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23713630 396 +  47401472 AGAAGTTAGCAAGTCTACCAAGATCTGAAATGTCTTTTGTTGCCTGGAAAATGTCGTTCACTTTTCCAA-TACTTTGTCCCAAATTTGAAACCACAAATACAATAGATATCTTAATCAGAGGTA--------------------------AGAAATTTAGTTGAATTTGAGTCCAAACCTATAAATAATAActgtaaaaataatgctggtactgacctcacatgattttgatttttatggtataagtccatatatatataacataattaaattgtgtatggagattaataaatgccaaattagtattagt------tattattATATTGGCTAcattcttaa-tgaatgtttattgaagttcttctgtggcaggcaaaatttcgagctctatataccgatgaacgaaacaaagattcttcccattgcgaa
i micMur3.chr31             I 43 I 13
s canFam3.chr31              18060071 393 +  39895921 AGAGTATATCAAGTGTATTAATGCCTG-AGTATCTTATGTTGTCTAGATAAAGCAATTAGATTTTGCAG-TATTTTGCACCAAATTTGAAACAGCAAATATGATGGGTATTTTAATCAGAGATA--------------------------AGAAATTCAGTTGACTTTGATCCCAGACACACA---AATAACTatgaggatattgttagtactgatttcataaggttttgactcttaggttgtagatcaa--cacacataatactattgaattatgtatggaaaataatgaacaccacagcaattttagctattattATTATTATATTAGCTAAattc--aattgaatatttattgactttcttctgtggcttg--aagttttcagtactgtataccagtgaacaaaataaagattcttctcattgtgga
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24881348   0 -  38779656 C

a score=93485.000000
s hg38.chr21_GL383579v2_alt    118161 13 +    201197 atttttctcctag
s panTro5.chr21               8737008 13 +  33445071 atttttctcctag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276120 13 +  46275980 atttttctcctag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258703 13 -  13858734 atttttctcctag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282712 13 +  32716333 atttttctcctag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696464 12 - 185818997 atttttctccta-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331107 12 - 192294377 atttttctccta-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955723 12 -  30496662 atttttctccta-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479565 12 +  21915920 atttttctccta-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980620 12 -  90373283 ATTTTTCTCCTA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484903 12 +   7543664 atttttctccta-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255830 12 -  13750039 atttttctccta-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515008 12 +  50472720 ATTCTTCTCTTA-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696090 12 +  13128814 atttttctctta-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939807 12 -  14377064 atttttctctta-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164807 12 -   9889416 atttttctctta-
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18060464 10 +  39895921 -gcgttccagt--
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23714026 13 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24881348  0 -  38779656 C

a score=370691.000000
s hg38.chr21_GL383579v2_alt    118174 31 +    201197 ggatatgttggggaaagagaatacaggcaat
s panTro5.chr21               8737021 31 +  33445071 ggatatgttggggaaagagaatacaggcaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276133 31 +  46275980 ggatatgttggggaaagagaatacaggcaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258716 31 -  13858734 ggatatgttggggaaagagaatacaggcaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282725 31 +  32716333 ggatgtgctggggaaagagaatacaggcaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696476 31 - 185818997 tgatatgctggagaaacagaatacaggcaat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331119 31 - 192294377 tgatatgctggagaaacagaatacaggcaat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955735 31 -  30496662 tgatatgctggagaaacagaatacaggcaat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479577 31 +  21915920 ggatatgctggagaaacagaatacaggcaat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980632 31 -  90373283 GGATATGTTGGAGAAAGAGAATACAGGCAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484915 31 +   7543664 ggatatgctggagaaacagaatacaggcaat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255842 31 -  13750039 ggatatgttggagaaagagaatacaggcaac
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515020 31 +  50472720 GGATATGTTGGGGAAAGGGAATATGGGCAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696102 31 +  13128814 ggatatgttggggaaaggaaatacaggcaat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939819 31 -  14377064 ggatatattggggaaagggaatacaagcaat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164819 31 -   9889416 ggatatgttgtggaaagggaatacaggtaat
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23714039 31 +  47401472 ggatgtgttggggaaagagaatacaggcaat
i micMur3.chr31             I 13 I 409
s canFam3.chr31              18060474 31 +  39895921 ggatgtgttagggaaagagaatacagacaat
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24881348  0 -  38779656 C

a score=929825.000000
s hg38.chr21_GL383579v2_alt    118205 89 +    201197 acaattttttataatcatactatcg-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGAGCTC
s panTro5.chr21               8737052 89 +  33445071 acaattttttataatcatactatcg-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGAGCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276164 89 +  46275980 acaattttttataatcatactatcg-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGAGCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258747 89 -  13858734 acaattttttataatcatactatcg-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGAGCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282756 89 +  32716333 acaattttttataatcatactatcg-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGATCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696507 89 - 185818997 aaaattttttataatcatactatca-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGATCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331150 89 - 192294377 aaaattttttataatcatactatca-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGATCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955766 89 -  30496662 aaaattttttataatcatactatca-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGATCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479608 89 +  21915920 aaaattttttataatcatactatca-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGATCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980663 89 -  90373283 AAAATTTTTTATAATCATACTATCA-TATTTATTGTGTGGTAAGTGCTAAGAAAAA-TAAATTAAAATTGAATAAGACATACCTAGATCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3484946 89 +   7543664 aaaattttttataatcatactatca-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATGTACCTAGATCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255873 89 -  13750039 aaaattttttataatcatactatca-tatttattatgtgataagtgctaagaaaaa-taaaTTAAAATTGAACAAGATATACCTAGATCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515051 89 +  50472720 ACAATTTTTTATAACTGTACTATCA-TATTTATGATTTGATAAATGGAAAGAAAAA-CAAATTAAAATTGAACAGGATATATCTAGATGTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696133 89 +  13128814 aaaaatttttataaccgtactatca-tatttatgatgtgataaatgcaaagaaaaa-caaaTTAAAATTGAAGATAATATATCTAGATCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939850 89 -  14377064 aaatttttttataactgtactatca-tatttatgatgtgataaatgcaaagaaaaa-caaaTTAAAATTGAACAGGATATATCTAGATCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164850 89 -   9889416 aaaattttttataactgtactatca-tatttaggatgtgataaatgcaaagaaaag-caaaTTAAAATTGAACAGGATATATCTAGATCTC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18060505 91 +  39895921 aaaatcttaaataactacttaattattgcttattatgtgataagtgctaaggaaaactaaattaagATTGAGCAAGATATTCTTGGATCTC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23714070 409 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I
e otoGar3.GL873528           24881348  0 -  38779656 C

a score=1313075.000000
s hg38.chr21_GL383579v2_alt    118294 130 +    201197 AATAAAATACTTTTAAT--TTCTTCTGATACAATAATTATTAAAATATAGAAAAAGT-TATAATAACATAGTACAA-----TAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATAGTTGAGAATGGTTCCACT
s panTro5.chr21               8737141 130 +  33445071 AATAAAATACTTTTAAT--TTCTTCTGATACAATAATTATTAAAATATAGAAAAAGT-TATAATAACATAGTACAA-----TAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATAGTTGAGAATGGTTCCACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276253 130 +  46275980 AATAAAATACTTTTAAT--TTCTTCTGATACAATAATTATTAAAATATAGAAAAAGT-TATAATAACATAGTACAA-----TAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATAGTTGAGAATGGTTCCACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258836 129 -  13858734 AATAAAATATTTTTAAT--TTCTTCTGATAAAATAATTATTAAAGTATAGAAAAAGT-TATACTAACATAGTACAA-----TAAAATGTAGAGCAAGTTATAA-GGGTTCACAGGACATAGTTGAGAATGGTTCCACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282845 135 +  32716333 AATAAAATACTTTTCAT--TTCTTCTGATACAATAATTATTAAAATATAGAAAAAGT-TATAATAACATAGTACGATAATTTAAAATGTAGAGCAAGTTATAAGGGGTTCATAGGACATGGTTGAGAATGGTTCCACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696596 135 - 185818997 AATAAAATGCTTTTAAT--TTCTTCTGATataataattattaaaatatataaaaagt-tataataacataataCAATCATTTAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331239 135 - 192294377 AATAAAATGCTTTTAAT--TTCTTCTGATataataattattaaaatatataaaaagt-tataataacataataCAATCATTTAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955855 135 -  30496662 AATAAAATGCTTTTAAT--TTCTTCTGATataataattattaaaatatataaaaagt-tataataacataataCAATCATTTAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479697 135 +  21915920 AATAAAATGCTTTTAAT--TTCTTCTGATataataattattaaaatatataaaaagt-tataataacataataCAATCATTTAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980752 135 -  90373283 aatataatacttttaat--ttcttctgatacaataattattaaaatatataaaatgt-tataataacataatacaataatttaaaatGTTGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3485035 135 +   7543664 AATAAAATGCTTTTAAT--TTCTTCTGATataataattattaaaatatataaaaagt-tataataacataataCAATCATTTAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5255962 135 -  13750039 AATAAAATACTTTTAAA--TTCTTCTGATACAATAATTATTAAAATATATAAAAAGT-CATAACAACATAATACAATAATTTAAAATGTAGAGCAAGTTATAAGGGGTTCACAGGACATGGTTGAGAATGGTTCCACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515140 133 +  50472720 AATAAAATATTTT--CC--TTTTTCTGATACaataattattaaaacatagaaaaagt-tataatgatatattacaataatttaaaattCAGAACAAGTCATAAGGGGTTCACTGGACATGGTTGAGCATGGTTCCACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696222 133 +  13128814 AATAAAATATTTTTCCT--TTCTTCTGATACAATAATTATTAAAACATAG--AAAGT-TATAGTGACATATTACAATAATTTAAAATACAGAACAAGTTATAAGGGGTTCACTGGATGTGGTTGAGTGTGGTTCCACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13939939 135 -  14377064 AATAAAATACTTTTCCT--TTCTTCTGATACCATAATTATTAAAACATAGAAAAAGT-TATAATGACATATTACAATAATTTAAAATACAGAACAAGTTATAAGGGGTTCACTGGGCATGGTTGAGCATGGTTCCACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9164939 135 -   9889416 AATAAAATATTTTTCCT--TTCTTCTGATACAATAATTATTAAAACATAGAAAAAGT-TATAATGATATATTGCAATAATTTAAAATACAGAACAAGTCATAAGGGGTTCACTGGATATGGTTGAGCATGGTTCCACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881348 101 -  38779656 AATACAATTTCTGCAAT--TTATTCTGAGATAACaattattttaaaata--aggatt-tataaaatcataa---aataatttaaaaGGGACAGCAAAGCATGTGGGATT-----------------------------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18060596 136 +  39895921 TATATACTATTTTTAATTGTTTTTCTGAGTCAATGGTCATTTAGAAACA--AAATGTAAAAAACAAAAAACTACAATAATTTAAAATGTATGGCAATGTCCGTAAGGTCAGGAGGACAGAGCGGATGATGATTGCACT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23714070 409 +  47401472 I
e dasNov3.JH578070            2393393 7107 +   3081153 I

a score=2138361.000000
s hg38.chr21_GL383579v2_alt    118424 181 +    201197 TTTAATTA----ATCAGAGTAAACCTCACTGAGTAAATAAATAC-ACAAGCTGTGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTATGCAAACCAAACAAAACAACTGCAGGCTGTGTTCTGTTTATCTGCTAC
s panTro5.chr21               8737271 181 +  33445071 TTTAATGA----ATCAGAGTAAACCTCACTGAGTAAATAAATAC-ACAAGCTGTGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTATGCAAACCAAACAAAACAACTGCAGGCTGTGTTCTGTTTATCTGCTAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276383 181 +  46275980 TTTAATGA----ATCAGAGTAAACCTCACTGAGTAAATAAATAC-ACAAGCTGTGCACAAATAGAGCAATGGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTATGCAAACCAAACAAAACAACTGCAGGCTGTGTTCTGTTTATCTGCTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8258965 181 -  13858734 TTTAATTA----ATCAGAGTAAACCTCACTGAGTAAATAAATAC-ACAAGCTGTGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---GTTTTG-------TAGCGGTATGCAAACCAAACAAAACAACTGCAGGCTGTGTTCTGTTTATCTGCTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9282980 182 +  32716333 TTTAATTA----ATCAGAGTAAACCTTACTGAGTAAATAAATACTATAAGCTGTGCACAAATACAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCACCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGAAGTATGCAAACCAAACAAAACAACTGCAGGCTGTATTCTGTTTATGTGCTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696731 182 - 185818997 TTTAATTC----ATCAGAGTAAACCTCACTGAGTAAATAAATACTATAAGTTGCGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTACGCAAACCAAACCAAACAACTGCAGGCTGTGTTCTGTCTATGTGCTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331374 181 - 192294377 TTTAATTC----ATCAGAGTAAACCTCACTGAGTAAATAAATACTATAAGTTGCGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTACGCAAACCAAACCAAACAACTGCAGG-TGTGTTCTGTCTATGTGCTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4955990 181 -  30496662 TTTAATTC----ATCAGAGTAAACCTCACTGAGTAAATAAATACTATAAGTTGCGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTACGCAAACCAAACCAAACAACTGCAGG-TGTGTTCTGTCTATGTGCTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13479832 182 +  21915920 TTTAATTC----ATCAGAGTAAACCTCACTGAGTAAATAAATACTATAAGTTGCGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGTGGTACGCAAACCAAACCAAACAACTGCAGGCTGTGTTCTGTCTATGTGCTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19980887 177 -  90373283 TTTAATTC----ATCAGAGTAAATCTCACTGAGTAAATAAATACTATAAGTTGTGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCAGTATG-----CAAACCAAACAACTGCAGGCTATGTTCTGTTTATGTGCTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3485170 182 +   7543664 TTTAATTC----ATCAGAGTAAACCTCACTGAGTAAATAAATACTATAAGTTGCGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTACGCAAACCAAACCAAACAACTGCAGGCTGTGTTCTGTCTATGTGCTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5256097 182 -  13750039 TTTAATTC----ATCAGAGCAAACCTCACTGAGTAAATAAATACTATAAGTTGCGCACAAATAGAGCAATAGAAAGTTGGT-GGGTTAATGAACAAGAAAGACCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TAGCGGTACGCAAACCAAACCAAACAACTGCAGGCTGTGTTCTGTTTATGTGCTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515273 183 +  50472720 TTTAATTA----ATCAGAGTAAACCTCACTGAGCAAATAAACACTATATGCTGTACACAAATAAAGCAATCTAAAGTTGGTGGGGCTAATGAACTAGAAATAGCATCTTTATTTT-GGAA----TATTCA---ATTTTG-------TGGTGGTATGCAAACCAAACAGAACCACTGCAGGCTGGGTCCTGTTTATGTGCTAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696355 181 +  13128814 TTTAATTA----ATCAGAGTAAATTTCACTGAGTAAATAAATACTATAAGCTGTACACAAAC--AGCAATCGAAAGTTGGTGGGGTTAATGAACTAGAAATAGCATCTTCATTTT-GGAA----TACTCA---ATTTTG-------TGGTGGTACGCAAACCAAATAAGACAACTGCAGGCTGTGTTCTGTTTATGTGCTAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13940074 183 -  14377064 TTCAATTA----ATCAGAGTAAACTTCACTGAGTAAATAAATACTATAAGCTGTACACAAACAGCACAATCGAAAGTTGGTGGGGTTAATGAACTAGAAATGGCATCTTCATTTT-GGAA----TATTCA---ATTTTG-------TGGTGGTATGCAAACCAAACAAAACAACTGCAGGCTGTGTTCTGTTTATGTGCTAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9165074 183 -   9889416 TTTAATTA----ATCAGAGTAAACCTCACTGAGCAAATAAACACTATAAGCTGTACACAAATAGAGCAATCGAAAGTTGGTGGGGTTAATGAACTAGAAGTAGCACGTTTATTTT-GGAA----TATTCA---ATTTAG-------TGGTGGTATGCAAACCAAACAAAACAACTGCAGCCTGTGTTCTGTTTAGGTGCTAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881449 158 -  38779656 ----------------------------TTGAGTAAGTAAATATCATAAGCTGAGCACAAACAGAACAATAGAGAATTGAT-GGGTTTATTATATAGAGAGGCTGTCTTTATTTT-GAAA----TATTCA---ATATTT-------TGTCAATATACAAGCCAAACAAAACATCTCTAGTCTGTGATCTGTTTATGTGCTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18060732 178 +  39895921 TTTAATTA----GTCAGAATAACACTCACTGAG----TAAATATCATAAGCTAGCCAGAAATAGAACAATGGAAAGTTAAT---------GAACTAGAAAGATCatttttattttaaaaa----tatgta---aatttatttattttGGTAGTATGCAAGCCAAACAAAACATCTGCAGGCTGTGTTCTGTTTATGTGCCAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2400500 193 +   3081153 tttaattagggtgtcagagtaaatctcactgagaaaataaATATTATAAGTTGGATACGAATAGAACAATAGAGTGTTGAG-GGATTAATACATTAGAAAGACCATTCttatttt-taaagtattatttatttatttat-------tGGCTGTGGGCAAGCCAAATAAAACTTCTGCAGGCTGTGTTCTGCTTATGTGCCAA
i dasNov3.JH578070          I 7107 C 0
e micMur3.chr31              23714070 409 +  47401472 I

a score=2484909.000000
s hg38.chr21_GL383579v2_alt    118605 182 +    201197 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGCGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
s panTro5.chr21               8737452 182 +  33445071 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGCGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTATACTAGCTCATCCTTGAGTTATTGCATAG-CCTCTT---AACTAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276564 182 +  46275980 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGCGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTATACTAGCTCATCCTTGAGTTATTGCATAG-CCTCTT---AACTAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259146 182 -  13858734 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGCGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283162 181 +  32716333 TGTGTTTGACCTCTACTTTAAAATAGAAAATAACTCAGAGCGACTGCATTCCAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTATACTAGCTCGTCCTTGAGCTATTGCATAG--CTCTT---AACTAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160696913 182 - 185818997 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAACTGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331555 182 - 192294377 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAACTGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4956171 182 -  30496662 TGTGTTTGACCTCTATTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAACTGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13480014 182 +  21915920 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAACTGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19981064 182 -  90373283 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTACACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3485352 182 +   7543664 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAGTATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAACTGTATACTAGCTCATCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5256279 182 -  13750039 TGTGTTTGACCTCTACTTTAAAACAGAAAATAACTCAGAGTGACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTGTTTCGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATGTGTACTAGCTCGTCCTTGAGCTATTGCATAG-CCTCTT---AACTAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515456 182 +  50472720 TGGGTTTGCCCTCTACTTTAAAACAGGAAATAACTCAAGGTGACTGTGTTCTAAATTTAGTCTACTAGCTTT-----CACAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACACGGTTTTTCAAGTT----AATATAAATGTGGTTGAAATCTATACTAGCTCATCCTTGAGCTACTGCACAA-CCTCCT---AACAAGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696536 182 +  13128814 TGAGTTTGCCCTCTACTTTAAAACAGAAAATAACTCAGGGTGACTGCGTTCTCAATTTAGTCTACTAGCTTT-----CACAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTGCACACAAGATTTTTTAAGTC----AATATAAATGTGGTTGAAATCTACACTAGCTCATCCTTGAGCTTCTGCACAG-CCTCCT---AACAAGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13940257 180 -  14377064 TGTGTTTGCCCTCTACTTTAAAACAGAAAAGAACTCAGGGTGACTGCGTTCTAAATTTAGTCCACTAGCTTT-----CACAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CT--ACACAAGATTTTTTAAGTC----AATATAAATGTGGTTGAAATCTATATTAGCTCATCCTTGAGCTACTACACAG-CCTCCT---GACAAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9165257 187 -   9889416 TGGGTTTGCCCTCTACTTTAAAACAGAAAATAACTCAGGGTGACTGCGTTCTAAATTTAGTCTACTAGCTTTCACAACACAATATTTGTTTTGTCAGTG-----------------------------------------------------------------------------------CTACACACAAGATTTTTTAAGTT----AATATAAATATGGTTGAAATCTATACTAGCTCATCCTTGAGCTACTGCACAG-CCTCCT---AACAAGT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23714479 182 +  47401472 TGTGTTTGACCTCTATTTTAGAAGAGGAAATACCTCAGAACAACTGCATTCTAAATTTAGTCTACTAGCTTT-----CAAAACATTTATTTTATCAGTG-----------------------------------------------------------------------------------TTACATGCAAGATTTTTCAAGTT----AATATAAATGTGGTTGAAATCTATGTTAGCTTTTCCTTGAGCTATTACATAG-TCTCTT---AATTAGT
i micMur3.chr31             I 409 I 183
s otoGar3.GL873528           24881607 185 -  38779656 TGTGTTTGA-CTGTATTTTAAAATAGGGAACACCTCAGTACAGCTGCATTCTAAATTCAGTCTACTAGCTTT-----CAAAATATTTATTTGATCAGTG-----------------------------------------------------------------------------------GTAGATGCAAGATCATTTGACTTAATAAATATAAATGGGGGTGAAACACACGTTAGCTTTTCCTTGAGTGATTGCAAAG-CCTTTT---AGCTGGT
i otoGar3.GL873528          C 0 I 5
s canFam3.chr31              18060910 260 +  39895921 TGCATTTGACCTCTACTTTAAAATAGGAGATACCTCACAGCAACTGCATTCTAAATTTAGTCTACTAGCTTT-----GGAAACATTTGTTTTGTCAGTGAATAAACCGCTACATG------TAAAAAGAACACTTGAGGCTAATTTTTAACGTCAAGTCAACCCCTCATTCAATCTAATCATCTACATGCAAGATTTTTCAAGTT----AGTATAAATGTGGTTGGAATACATGTTAGCTCATTcctgagctattggataaatctctt---aactaat
i canFam3.chr31             C 0 I 5
s dasNov3.JH578070            2400693 254 +   3081153 TGCATTTAACCTCTATTTTAAAACTGGAAATACCTCAGAGCAGCTGCATTCTATATTTATTGTATTCAATTT-----CAAAACTCTTGTTTTGCCAATA--------AGTAAATGACTGTATGTAAAAGAACGCTTTAGGCCACTTTTTCTGCAAATTCTTCTCTTGGTTCAATCTAATCATCTGCACGCAAGATATTTGGAATC---GAATATGATCATGTTTG------CTATTAGTTCATCCTTG-GCTATTACATAG-ACCTTTTTAAACTAGT
i dasNov3.JH578070          C 0 C 0

a score=1622403.000000
s hg38.chr21_GL383579v2_alt    118787 155 +    201197 TGCCTCTCGTTGTCTTGTT--TCTCTTTCCATCTTTCTTACCCAGATAAACTT-TTTTAGATGAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAGTCAAATCTAAACAGGTTAATCTCTACCATCCTGTGTC
s panTro5.chr21               8737634 155 +  33445071 TGCCTCTCGTTGTCTTGTT--TCTCTTTCCATCTTTCTTACCCAGATAAACTT-TTTTAGATGAAATAAATGAATGATTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAGTCAAATCTAAACAGGTTAATCTCTACCATCCTGTGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276746 155 +  46275980 TGCCTCTCGTTGTCTTGTT--TCTCTTTCCATCTTTCTTACCCAGATAAACTT-TTTTAGATGAAATAAATGAATGATTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAGTCAAATCTAAACAGGTTAATCTCTACCATCCTGTGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259328 155 -  13858734 TGCCTCTCGTTGTCTTGTT--TCTCTTTACATCTTTCTTACCCAGATAAACTT-TTTTAGATGAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAGTCAAATCTAAACAGGTTAATCTCTACCATCCTGTGTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283343 155 +  32716333 TGCCTCTCATTGTCATGTT--TTTCTTTCCATCTTTCTTACCCAGATAAACTT-TTTTAGACGAAATAAATGAGTGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGCGGTCTACTAAATCAAATCTAAACAGGCTAATCTCTACCATCCTGTGTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697095 155 - 185818997 TGCCTCTCATTGTCTTGTT--TCTCTTTCCATCTGTCTTACCCAGAGAAACTG-TTTTAGACAAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGTAGTCTACTAAATCAAATCTAAACAGGTTAATCTGCACTATCCTGTCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331737 155 - 192294377 TGCCTCTCATTGTCTTGTT--TCTCTTTCCATCTGTCTTACCCAGAGAAACTG-TTTTAGACAAAATAAATGAATGCTTTACTCACTCGATCACAAGTAGTCAA------CTCTGTAGTCTACTAAATCAAATCTAAACAGGTTAATCTGCACTATCCTGTCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4956353 155 -  30496662 TGCCTCTCATTGTCTTGTT--TCTCTTTCCATCTGTCTTACCCAGAGAAACTG-TTTTAGACAAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGTAGTCTACTAAATCAAATCTAAACAGGTTAATCTGCACTATCCTGTCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13480196 155 +  21915920 TGCCTCTCATTGTCTTGTT--TCTCTTTCCATCTTTCTTACCCAGAGAAACTT-TTTTAGACAAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAATCAAATCTAAACAGGTTAATCTGCACTATCCTGTCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19981246 155 -  90373283 TGCCTCTCATTGTCTTGTT--TCTCTTTCCATCTTTCTTACCCAGAGAAACTT-TTTTAGACAAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAG------CTCTGCAGTCTACTAAATCAAATCTAAACAGGTTAATCTGCACTATCCTGTCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3485534 155 +   7543664 TGCCTATCATTGTCTTGTT--TCTCTTTCCATCTTTTTTACCCAGAGAAACTT-TTTTAGACAAAATAAATGAGTGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAATCAAATCTAAACAGGTTAATCTGCACTATACTGTCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5256461 155 -  13750039 TGCCTCTCATTGTCTTGTT--TCTCTTTCCATCTTTCTTACCCAGAGAAACTT-TTTTAGACAAAATAAATGAATGCTTTACTCACTTGATCACAAGTAGTCAA------CTCTGCAGTCTACTAAATCAAATCTAAACAGGTTAATCTGTACTATCCTGTCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26515638 155 +  50472720 TGCCTCCCATTGTCTTGTTTCTCTCTTTCCATATTTCTTGCCCGGATAAACTCTTTTTAGATGAAATAAATAAACTCTTTACTTTCTAGATCACAAGTAGCCA-------CTCTGCAGTCTACTAAATCAAATCTAAACACGTAAATCTCTACGATCC--TCTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696718 153 +  13128814 TGCCTCTCATTGTCTTGTTTCTCTCTTTCCATCTTTCTTGCCCAGATAAACTC--TTCAGATGAAATAAATGAATCCTTTACCTTCTTGATCACAAGTAGCCA-------CTCTGCAGTCTACTAAATCAAATCTAAACAGGTAAATCTCTGCCATAC--TCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13940437 155 -  14377064 TGCCTCACATTGTCTTGTTTCTCTCTTTCCATCTTTCTTGCCCAGATAAACTCTTTTTAGATGAAATAAATGAATCCTTTATCTTCTTGATCACAAGTAGCCA-------CTCTGCAGTCTACTAAATCAAATCTAAACAGATAAATCTCTACCATCC--TCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9165444 155 -   9889416 TGCCTCCCATTGTCTTGTTTCTCTCTTTCCATCTTTCTTGCCCAGATAAACTCTTTTTAGATGAAATAAATGAATCCTTTACTTTCTTGATCACAAGTAGCCA-------CTCTGCAGTCTACTAAATCAAATCTAAACAGGTAAATCTCTACCATCC--TCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24881797 138 -  38779656 TGCCTT---TTGTCTTGTT--TCTCTTT------------CCCAGATAAACTT-ACTTAGACTAAATATA-------TTTACTCACTTAATCACAAACCTGCAGT-GTTTCTCTATAGTATACTGAATCAAATCTAAACACTTCAATCTCTATCATCTCATCTT
i otoGar3.GL873528          I 5 I 17
s canFam3.chr31              18061175 157 +  39895921 tgcctccag--gctctctc--tttctttccatctctct--accagataaagct-tcttagaataaatatatgattgttttactcacttgataaggaacctacagtagtgtctcTGTTGCCTACTGAATCAAATACAAATGCTTTTCTCTCTCCTATCTGGTCTC
i canFam3.chr31             I 5 I 15
s dasNov3.JH578070            2400947 155 +   3081153 ---TTCTTTACCTCCAGAC--TGTCTTTGCATCATTTTTA-CCAGATTAATCT-TTTCATACTAAATTTATAATTGTTTTACTCACT--ATCAAAAACAGTCAGTGGGCTCTCTGTTGGGTAGTGAAACAAATCTCAACACCTGAATCCCTATAATTCCTTACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23714661 183 +  47401472 I

a score=2855371.000000
s hg38.chr21_GL383579v2_alt    118942 226 +    201197 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTACTGTGCCAGG-ACATTAATCAACTGCATACATTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-ACCAACAGAAATAA---ACTCTTCTGAAGTCCTACGTTTCTTTGTTGGTACT
s panTro5.chr21               8737789 226 +  33445071 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACGTCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTACTGTGCCAGG-ACATTAATCAACTGCATACATTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-ACCAACAAAAATAA---ACTCTTCTGAAGTCCTACGTTTCTTTGTTGGTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22276901 226 +  46275980 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACGTCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTACTGTGCCAGG-ACATTAATCAACTGCATACATTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-ACCAACAAAAATAA---ACTCTTCTGAAGTCCTACGTTTCTTTGTTGGTACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259483 226 -  13858734 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTACTGTGCCAGG-ACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-ACCAACAAAAATAA---ACTCTTCTGAAGTCCTACGTTTCTTTGTTGGTACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283498 227 +  32716333 -----------------TTTTTTCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTATTGTGCCAGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TTTGATTTTT-ACCAACCAAAATAA---ACTCTTCTGAAGTCCTACGTTTCTTTGTTGGTGCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697250 227 - 185818997 -----------------TTTTTCCCCAACTACACTTTCAAATTGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TGATCAGCCTTTCCTCACTTTTGTTATTGTGCCTGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---ACTCTTGCGAAGTCCTACGTTTCTTTGTTGGTACG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167331892 227 - 192294377 -----------------TTTTTCCCCAACTACACTTTCAAATTGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TGATCAGCCTTTCCTCACTTTTGTTATTGTGCCTGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---ACTCTTGCGAAGTCCTACGTTTCTTTGTTGGTACG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4956508 227 -  30496662 -----------------TTTTTCCCCAACTACACTTTCAAATTGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TGATCAGCCTTTCCTCACTTTTGTTATTGTGCCTGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---ACTCTTGCGAAGTCCTACGTTTCTTTGTTGGTACG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13480351 227 +  21915920 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TGTTCAGCCTTTCCTCACTTTTGTTATTGTGCCTGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---ACTCTTGCGAAGTCCTACGTTTCTTTGTTGGTACG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19981401 227 -  90373283 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTATTATGCCTGGAACATTAATCAACTGCATACTTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---ACTCTTGTGAAGTCCTACGTTTCTTTGTTGGTACG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3485689 227 +   7543664 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TGTTCAGCCTTTCCTCACTTTTGTTATTGTGCCTGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---ACTCTTGCGAAGTCCTACGTTTCTTTGTTGGTACG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5256616 227 -  13750039 -----------------TTTTTCCCCAACTACACGTTCAAATGGCATATCATTTCTTGCACATCACTTATACTGTTG--CAT--TATTCAGCCTTTCCTCACTTTTGTTATTGTGCCTGGAACATTAATCAACTGCATACCTTTC--CACTGAAATAATATCCCATCTTTCAGTCTTACACAG---------------CCAATTCT-TCTGATTTTT-AGCAACCAAAATAA---AGTCTTCCGAAGTCCTACGTTTCTTTGTTGGTACG
i colAng1.NW_012120598v1    C 0 I 289
s calJac3.chr21              26515793 227 +  50472720 -----------------TTTTTCCCCAACTACACTTTCAAATGCGATATCATTTCCTGCACATCACTTATACTGTTG--CAT--TATTCACCCTTTCCTCACTTCTGTTATTGTGCCTGGAACATTCATCAACTACATACATTTC--CACTGAAATAATATCCCATCTTTCAGTCTTATGCAG---------------CCAATTCT-TGTGATTTTT-ACCAACAAAATTAC---ATTCTTCTGAAGTCCTACATTTCTTTTTTGGAACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8696871 227 +  13128814 -----------------TTTTTCCCCAACTACACTTTAAAATGGCATATCATTTCCCTCACATCACTTATACTGTTG--CAT--CATTTCCCCTTTCCTCACTTTTGCTATTGTGCCCGGAACAGTCATCAATTACATACATTTT--CACTGAAATAATATCCCATCTTTCAGTCTTATACAG---------------CCAATTTT-TGTGACTTTT-ACCAACCAAAATAC---ACTTTTCCAAAGTCCCACATTTCTTTTTTGGAACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13940592 227 -  14377064 -----------------TTTTTCCCCAACTACACTTTCAAATGGCATATCATTTCCCACACATCACGTATGCTGTGG--CAT--TATTCATCATTTTCTCACTTTTGCTATTGTGCCTGGAACGTTCATCAACGACATACATTTC--CACTGAAATAATATCCCATCTTTCAGTCTTACACAG---------------CCAATTCT-TGTGATGTTT-ACCCACCAAAATAC---ACCCTTCTGAAGCCCTACATTTCTTTTTTGAAACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9165599 227 -   9889416 -----------------TTTTTCCCCAACTAGACTTTCAAGTGGCACATCATTTCCTTTACATCACTTATACTGTTG--CAT--TATTCACCCTTTCCTCACTTCTGTTACTGTGCCTGGAACATTCATTAACTGCATACATTTC--CACTGAAATAATACCCCATCTTTCAGTCTTATACAG---------------CCAATTCT-TGTGATTTTT-ACCAAGAAAAATAC---AGCCTTCTGAAGTCCTGCATTTCTTTTTTGGAACA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23714844 226 +  47401472 -----------------TTTTGCCCCAGCTGCACTTTCAAATGACATATCTATTCTTGTCCATCATTTAGACTGATGGACAT--TATTCACCCTTT-CTCACTTTTGTTATTGTGCTTGGAGCATTAATCAACTA-ACACCTTTC--TGCTGAAATAATACCCTATCTTTCAGTGTTGTACAT---------------GCAATTTTGTGTTATTTTT-TCCAACCAAAATAG-----TCTTCTGAAATTTTACGTTCCCTTGTTGGTGTC
i micMur3.chr31             I 183 C 0
s otoGar3.GL873528           24881952 227 -  38779656 -----------------ATTTTTCCCAGATGCATTGTCACATGACAGGTCTTTTCTTGTCCATCGTTTAGACTGTTGG-CAT--TATTCACCCCTT-CTCACTTCTGTTATTGTGTGTGGAACACTAATCAACTACATACTTTTT--TGCTGAAATAATAGCCTGCCTTTCAGTCTTATATAT---------------GCAACTTTATATGATTTTTCTCCTACCAAAATAG-----TCTTATGAAATTTTATATTCTCTTATTGGTAAC
i otoGar3.GL873528          I 17 C 0
s canFam3.chr31              18061347 236 +  39895921 -----------------TTTTGTCTCAGCTACACTTTTAAATGACCTATCATTTCTTGTATATCACGTATAATGTTGA-CAGTATATTCACCCATTTATCCCTTTCTTTATATTTCCTGAAAGATTAATCAACTCCATATCTTTCTTTGTTGAAATAATATCCTATCTTTCAGTATTGAACAT---------------TCAATCTTGCATGATTTCC-TCACACCAAAACAATCAACTCTTCCGAAGTCTTATTTTTCCTTGTCAGTACT
i canFam3.chr31             I 15 C 0
s dasNov3.JH578070            2401102 258 +   3081153 GCTTTTCCTACACTATATTTTGCTACAGTTACACTTAGAAATGAAATGACATTTCTTGTACATGACTTAGACTGCTG--TAT--TATGCAGCCTTTCCTTACATGTGTT-TTTTAGCTGGAATATTAATCAACTCCATGTCTTAC--TGCTGAAATAATAAACTACCTTTCAGTATTTTAAAGGATTACCTACTCCCTGCAATCTTGTGTGATATTT-TCCCTCCAAAATAATCAACTCTTCCAAAGTCCA----TACTTTGTTGGGACT
i dasNov3.JH578070          C 0 C 0

a score=1501901.000000
s hg38.chr21_GL383579v2_alt    119168 130 +    201197 CTTTT----TATAATATACTTCGG-TTGTAATATA-ATTCCTCATATTGG-TTTACATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAAATAGAT
s panTro5.chr21               8738015 130 +  33445071 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCATATTGG-TTTACATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAAATAGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277127 130 +  46275980 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCATATTGG-TTTACATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAAATAGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259709 130 -  13858734 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCATATTGG-TTTACATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAAATAGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283725 130 +  32716333 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAAATAGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697477 130 - 185818997 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAGATAGAT
i rheMac8.chr3              C 0 I 2
s macFas5.chr3              167332119 130 - 192294377 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAGATAGAT
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      4956735 130 -  30496662 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAGATAGAT
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13480578 130 +  21915920 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAGATAGAT
i cerAty1.NW_012002954v1    C 0 I 2
s chlSab2.chr2               19981628 130 -  90373283 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-TTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAGATAGAT
i chlSab2.chr2              C 0 I 2
s manLeu1.NW_012103476v1      3485916 117 +   7543664 CTTTT----TATAATATACTTTGG-TTGTAATATA-ATTCCTCTTATTG--------------GTGAG-TTTGA---ACATTTTTTTG--CAAATGAAAC-CTACATAG-TTTTGT----TTTCTACTCAGAACCAATCTCAGATAGAT
i manLeu1.NW_012103476v1    C 0 I 2
s colAng1.NW_012120598v1      5257132 129 -  13750039 cttTT----TATAATATACTTTGA-TTGTAATATA-ATTCCTCTTATTGG-TTTATATTCCTTGTGAG-TTTGA---AC-TTTTTTTG--CAAATGAAAC-CTACATAG-TTTTAT----TTTCTACTCAGAACCAATCTCAGATAGAT
i colAng1.NW_012120598v1    I 289 I 2
s calJac3.chr21              26516020 134 +  50472720 CTTACTATATATAATATACTTTGC-TTGCCATATA-ATTCCTCTTACTGT-TTTATATTCCTTGTGAG-TTTGA---CTTTTTTTTTT--ACAATGAAAC-ATACATAG-TTTTGT----TTACCACTCAGAACCAATCTCAAATAGAT
i calJac3.chr21             C 0 I 2
s saiBol1.JH378168            8697098 132 +  13128814 CTTAT----TATAATATACTTTGG-TTGTCATATA-ATTCCTCTTGTTGT-TTTATATTCCTTGTGAG-TTTGA---TTTTTTTTTTTTGCAAATGAAGC-ATACATCG-TTTTGT----TTATTGCTCAGAACCAATCTCGAATAGAT
i saiBol1.JH378168          C 0 I 2
s cebCap1.NW_016107322v1     13940819 135 -  14377064 CTTAT----TATAATATACTTTGG-TTGTCATATA-ATTCCTCTTATTGT-TTTATATTCTTTGTGAG-TTTGAAATTTTTATTTTTTTGCAAATGAAAC-CTACATAG-TTTTGT----TTACTGCTCAGAACCAATCTCAAATAGAT
i cebCap1.NW_016107322v1    C 0 I 2
s aotNan1.NW_018487195v1      9165826 130 -   9889416 CTTAT----TATAATA-ACTTTGG-TTGTCATATA-ATTCCTCTTATTGT-TTTATGTTCCTTGTGAA-TTTGA---AAATTTTTTTT-GCAAATGAAAC-ATACATAG-TTTTGT----TTACTGCTCAGAACCAATCTCAAATAGAT
i aotNan1.NW_018487195v1    C 0 I 2
s micMur3.chr31              23715070 128 +  47401472 CTTAT----TACAACATAATTTGT-CTGTATTATA-ATTCCTCTATTT-T-TTTATATTCCTTGTGAG-TTGGA---AAATG--TTTG--CAAATGAAAA-ATACATAGTTTTTCT----TTACTATTCAGAACCAATCTCAAATAGAT
i micMur3.chr31             C 0 I 77
s otoGar3.GL873528           24882179 130 -  38779656 TTTAT----TACAATATTCTTTGG-CTGTATTATA-ATTTCTTTCATT-T-TTTATATTCTATATGAGCTTGGA---AAATG--TTTG--CAAATGGAAATATACATAGTTTTTGT----TGACTATACATAAACAATTTGAAATAGAT
i otoGar3.GL873528          C 0 I 2
s canFam3.chr31              18061583 136 +  39895921 CTTAT----TGCAATATACTTTGTCTTGTATTGTA-ACTCCTCTGATTGGTTTTGTATTCCTTGAGTA-TTTGA---AAAAAAACTTG--GAACTAGAGA-ATACATAT-TTTTATTTGCTTACTATTCAGAACCAATTTCAAATACAA
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2401360 109 +   3081153 -CCTT----AACAATATGCTTTGG-TT----TGTACATTCTTTTTATAAG-ATTATATTCCTTCTGAG-TT-AA---AAACTTCCATG--TGAATGGAAT----------TCTATT----CT--------GAATAAAGCTCAAATAGAA
i dasNov3.JH578070          C 0 C 0

a score=397623.000000
s hg38.chr21_GL383579v2_alt    119298 48 +    201197 --GATACTAAAGAAAAAAA--------ATATGAG--AGTATGAGAGTTGCCA-----------------TTCTTGTA
s panTro5.chr21               8738145 47 +  33445071 --GATACTAAAGAAAAAAA---------TAAGAG--AGTATGAGAGTTGCAA-----------------TTCTTGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277257 47 +  46275980 --GATACTAAAGAAAAAAA---------TAAGAG--AGTATGAGAGTTGCAA-----------------TTCTTGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259839 47 -  13858734 --GATACTAAAGAAAAAAA---------TATGAG--AGTATGAGAGTTGCCA-----------------TTCTTGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283855 49 +  32716333 --GACACTAAAGAAAAAAA-------AATATGAG--AGTATGAGAGTTGCCA-----------------TTCTTGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697609 45 - 185818997 --GATACTAAAGAAAAAAA-----------TGAG--AATATGAGAGTTGCCA-----------------TTCTTGCA
i rheMac8.chr3              I 2 C 0
s macFas5.chr3              167332251 45 - 192294377 --GATACTAAAGAAAAAAA-----------TGAG--AATATGAGAGTTGCCA-----------------TTCTTGCA
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      4956867 45 -  30496662 --GATACTAAAGAAAAAAA-----------TGAG--AATATGAGAGTTGCCA-----------------TTCTTGCA
i macNem1.NW_012015021v1    I 2 I 11472
s cerAty1.NW_012002954v1     13480710 45 +  21915920 --GATACTAAAGAAAAAAA-----------TAAG--AATATGAGAGGTGCCA-----------------TTCTTGCA
i cerAty1.NW_012002954v1    I 2 C 0
s chlSab2.chr2               19981760 45 -  90373283 --GATACTAAAGAAAAAAA-----------TGAG--AGTATGAGAGTTGCCA-----------------TTCTTGCA
i chlSab2.chr2              I 2 C 0
s manLeu1.NW_012103476v1      3486035 45 +   7543664 --GATACTAAAGAAAAAAA-----------TGAG--AATATGAGAGTTGCCA-----------------TTCTTGCA
i manLeu1.NW_012103476v1    I 2 C 0
s colAng1.NW_012120598v1      5257263 45 -  13750039 --GATACTAAAGAAAAAAA-----------TGAG--AGTATGAGAGTTGCCA-----------------TTCTTGTA
i colAng1.NW_012120598v1    I 2 C 0
s calJac3.chr21              26516156 63 +  50472720 --GATACTGAAG-AAAAAC---------TGTAAG--ATTATGAGAGTTGACAGTATGAGAGTATGAGAGTTCTTGTA
i calJac3.chr21             I 2 C 0
s saiBol1.JH378168            8697232 64 +  13128814 --GATACTGAAGAAAAAAC---------TGTAAG--ACTATGAGAGCTGACAGTATGAGAGTATGAGAGTTCTTGTG
i saiBol1.JH378168          I 2 C 0
s cebCap1.NW_016107322v1     13940956 64 -  14377064 --GATACTGAAGAAAAAAC---------TATAAG--ATTATGAGAGTCGACAGTATGAGTGTATGAGAGTTCTTGTA
i cebCap1.NW_016107322v1    I 2 C 0
s aotNan1.NW_018487195v1      9165958 64 -   9889416 --GATACTGAAGAAAAAAC---------TGTGAG--ATTATGAGAGTTGACAGTATGAGAGCATGAGAGTTCTTGTA
i aotNan1.NW_018487195v1    I 2 C 0
s otoGar3.GL873528           24882311 47 -  38779656 --GATACGAATGAAAATTT---------TGTAAG--AACATGAGAGTCCTAA-----------------CTCTTATG
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              18061721 56 +  39895921 --GGTGCTAAAGAAGAAACTTTTAACAATATAAA--TGAATGAGAGTCCCTA-----------------TTTTTCAG
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2401469 51 +   3081153 AAAGTACCTGGGAAAAATT---------TATAGATTATAATGAGAGTCCCCA-----------------TTCTTATG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23715198 77 +  47401472 I

a score=61209.000000
s hg38.chr21_GL383579v2_alt    119346 14 +    201197 TCCATCACCTTGTG
s panTro5.chr21               8738192 14 +  33445071 TCCATCACCTTGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277304 14 +  46275980 TCCATCACCTTGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259886 14 -  13858734 TCCATCACCTTGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283904 14 +  32716333 TCCATCACCTTGTG
i nomLeu3.chr25             C 0 C 0
s colAng1.NW_012120598v1      5257308  1 -  13750039 ------------T-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516219 14 +  50472720 TCCATCACCTTGTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697296 14 +  13128814 TCCATCAACTTGTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941020 14 -  14377064 TCCATCACCTTGTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166022 14 -   9889416 TCCATCACCTTGTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24882358 14 -  38779656 TCCATCACATTATG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18061777 14 +  39895921 TTCATCATCTCATG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2401520 14 +   3081153 CCAATCACTTTCTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23715198 77 +  47401472 I
e cerAty1.NW_012002954v1     13480755  0 +  21915920 C
e macNem1.NW_012015021v1      4956912 11472 -  30496662 I
e macFas5.chr3              167332296  0 - 192294377 C
e rheMac8.chr3              160697654  0 - 185818997 C
e manLeu1.NW_012103476v1      3486080  0 +   7543664 C
e chlSab2.chr2               19981805  0 -  90373283 C

a score=240580.000000
s hg38.chr21_GL383579v2_alt    119360 24 +    201197 CTCCGAATTAAACAGATAAATTAA
s panTro5.chr21               8738206 24 +  33445071 CTCCGAATTAAACAGATAAATTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277318 24 +  46275980 CTCCGAATTAAACAGATAAATTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259900 24 -  13858734 CTCCGAATTAAACAGATAAATTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283918 24 +  32716333 CTCCGAATTAAACAGATAAATTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697654 24 - 185818997 CTCCGAATTAAACAGATAAATTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332296 24 - 192294377 CTCCGAATTAAACAGATAAATTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968384 24 -  30496662 CTCCGAATTAAACAGATAAATTAA
i macNem1.NW_012015021v1    I 11472 C 0
s cerAty1.NW_012002954v1     13480755 24 +  21915920 CTCCGAATTAAACAGATAAATTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19981805 24 -  90373283 CTCCGAATTAAACAGATAAATTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486080 24 +   7543664 CTCCGAATTAAACAGATAAATTAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257309 23 -  13750039 -TCTGAATTAAACAGATAAATTAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516233 24 +  50472720 CACCCAATTAAACAGATAAATTAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697310 24 +  13128814 CTCTCAATTAAACAGATAAATTAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941034 24 -  14377064 CTCCCAATTAAACAGATAAATTAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166036 24 -   9889416 CTCCCAATTAAACAGATAAATTAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24882372 14 -  38779656 ATTCAAATTAAGTC----------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18061791 14 +  39895921 ATTTGAATTAAACC----------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2401534 14 +   3081153 ATGTGAATTAAACC----------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23715198 77 +  47401472 I

a score=1944368.000000
s hg38.chr21_GL383579v2_alt    119384 162 +    201197 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGAGAAAACTAGCTATGCTTTATGCTGTTAATAAAG---G-AAAGGG----TGAAAATAGAGTAGATATTACTACATAA-GTAACTACTGCC-------------------TTTTATAGCTGAAAAAATTCATGT
s panTro5.chr21               8738230 162 +  33445071 ATAGACGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGAGAAAACTAGCTATGCTTTATGCTGTTAATAAAG---G-AAAGGG----TGAAAATAGAGTAGATATTACTACATAA-GTAACTACTGCC-------------------TTTTATAGCTGAAAAAATTCATGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277342 162 +  46275980 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGAGAAAACTAGCTATGCTTTATGCTGTTAATAAAG---G-AAAGGG----TGAAAATAGAGTAGATATTACTACATAA-GTAACTACTGCC-------------------TTTTATAGCTGAAAAAATTCATGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8259924 162 -  13858734 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGAGAAAACTAGCTGTGCTTTATGCTGTTAATAAAG---G-AAAGGG----TGAAAATAGAGTAGATATTACTACATAA-GTAACTACCGCC-------------------TTTTATAGCTGAAAAAATTCATGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9283942 162 +  32716333 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGAGAAAACTAGCTCTGCTTTATGCTGTTAACAAAG---G-AAAGGG----TGAAAATAGAGTAGCTATTACTACATAA-GTAATTACTGCC-------------------TTTTATACCTGAAAAAATTCATGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697678 162 - 185818997 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGATAAAACCAGCTCTCATTTACACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTCCTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332320 162 - 192294377 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGATAAAACCAGCTCTCATTTGTACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTCCTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968408 162 -  30496662 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGATAAAACCAGCTCTCATTTATACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTCCTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13480779 162 +  21915920 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGATAAAACCAGCTCTCATTTATACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTCCTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19981829 162 -  90373283 ATAGATGTAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGATAAAACCAGCTCTCATTTATACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTACTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486104 162 +   7543664 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATATGCATGATAAAACCAGCTCTCATTTATACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTCCTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257332 162 -  13750039 ATAGATGAAATTACT-TTTTATGGAGATACTTTATTTTTACATGGACAAATACGTATGATAAAACCAGCTCTCATTTGTACTGTAAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTACTACATAA-ACACTTACTGCT-------------------TTTTATAGCTGAAAGAATTCATGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516257 163 +  50472720 ATAGATGAAATTATCATTTTATGAAGATACTTTATTTTTACATGAACCAATGTGCATGATAAAAGAACCTCTGATTTATGCTGTTAATAAAG---G-AAAGGG----GGAAAATAGAGTGGATATTAGTACAGAA-ACAAGTACTGCC-------------------TTTTATGGCTGAAAGAATTCATGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697334 163 +  13128814 ATAGATGAAATTATCGTTTTATGAAGATACTTTATTTTTACATGGACCAGTGTGCATGATAAAAGTACCTGTGACTTATGCTGCTAATAAAG---G-AAAGGG----GAAAAATAGAGTGGATATTAGTACATAA-GCAATTACTGCC-------------------TTTTTTAGCTGAAAGAATTTGTGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941058 164 -  14377064 AAAGATGAAATTATCATTTTATGAAGATACTTTATTTCTACATGGGCCAATGTGCATGATAAAAGTACTTCTGGTTTATGCTGTTAATAAAG---GAAAAGGG----GAAAGATAGAGTGGATAGTAGTACATAA-GCAATTACTGCC-------------------TTTTATAGCTGAAAGAATTCATGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166060 164 -   9889416 ATAGATGAAATTATTATTTTATGAAGATACTTTATTTTTACATGGACCAACGTGCATGATAAAAGTACCTCTGATTTATGCTGTTAACAAAG---GAAAGGGG----GAAAAATAGAGTGGATATTAGTACATAA-GCAATTACTGCC-------------------TTTTATAACTGAAAGAATTCATGT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23715275 167 +  47401472 ATAGATGAAATTACTTCTTTATGGAGATACTTTATTTTGACAGAGAGAATTGTTCATGATAAAAGTAGCTTGAATTTATGCTGTTAATAAAG---G-AAGGGCAAGAAAAAAATAGGGTAGATATTACTATGTAA-ACAATTACTGTC-------------------TTTTACAGCTGCAAGGATTCATGT
i micMur3.chr31             I 77 I 1318
s otoGar3.GL873528           24882386 164 -  38779656 ATAGATGAAATTACTTCTTTACAGAAATTCTTTATTTTGACATAGAAACTTGTTTATGATAAAAGCAGCTCTGATTCACTCAGTTAATAACA---A-AAGAGGGAG-ACAAAATAGGATTGACGTTAGTATGCAATATAATATCT----------------------TTTTATAGCTGCAAGAATTTATGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18061805 166 +  39895921 ATTGACAAAATCAATTCTTTATGTAGATACTTTATCTTGACATTGACAAATTTTCATGATGAAAGTAGCTCTGATTTATGTTGTTGATAAAGAGAG-AAAAAA----GCAAATTAGGATAGATACTACTGCGAAA-GAGATTACTGTC-------------------AGTTATGGCTGGAAGGATTTCTGC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2401548 159 +   3081153 ----ATG---------ATTTAT--AGATACTTTACTTTAACATAGGGAAATATTCATGATGATAA----TCTGATTTATGTTATTATTAAAG---G-AAATGA--------AATATAGTATATATGACTGTGTAA-ACGATTACTGTCAGTTAACATTTAAATAATTTTATATAGCTGGGAGGAATTTTGC
i dasNov3.JH578070          C 0 C 0

a score=147998.000000
s hg38.chr21_GL383579v2_alt    119546 35 +    201197 AGCCTATTagagagaaaaaaa----------------agagagagaaaaga
s panTro5.chr21               8738392 34 +  33445071 AGCCTATTagagagaaaaaaa-----------------gagagagaaaaga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277504 34 +  46275980 AGCCTATTagagagaaaaaaa-----------------gagagagaaaaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260086 29 -  13858734 CGCCTGTTag-----aaaaaa-----------------aagagagaaaaga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284104 35 +  32716333 AGCCTATTagagagaaaaaaa----------------agagagagaaaaga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697840 44 - 185818997 AGCCTAGTagagagagagaaaacaaaa-------gagagagagagaaaaga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332482 44 - 192294377 AGCCTAGTagagagagagaaaacaaaa-------gagagaaagagaaaaga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968570 44 -  30496662 AGCCTAGTagagagagagaaaacaaaa-------gagagagagagaaaaga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13480941 44 +  21915920 AGCCTAGTagagagagagaaaacaaaa-------gagagagagagaaaaga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19981991 44 -  90373283 AGCCTAGTagagagagagaaaacaaaa-------gagagagagagaaaaga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486266 44 +   7543664 AGCCTAGTagagagagagaaaacaaaa-------gagagagagagaaaaga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257494 42 -  13750039 AGCCTAGTagagagagagaaaac--aa-------gagagagagagaaaaga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516420 29 +  50472720 AGCCTAGTAG--AAAAAGATA-----------------GAAAGAAAAA---
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697497 31 +  13128814 AGTCTAGTagaaaaaaagaag-----------------gaaagaaaaa---
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941222 30 -  14377064 AGACTAGTAG-AAAAGAGAAA-----------------GAAAGAAAAA---
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166224 33 -   9889416 AGCCTAGTag-aaaaaagaaa-----------------gaaagaaaaaaga
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24882550 10 -  38779656 -----------------------------------------GGCTTAATGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18061971 38 +  39895921 -------------AACACAATATGATACTTAGTTgagggaaagagagaagg
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2401707 38 +   3081153 AGCCCAATATTTTATTTGAAG-------------CACAGACAGAGAAGTGA
i dasNov3.JH578070          C 0 I 83
e micMur3.chr31              23715442 1318 +  47401472 I

a score=334361.000000
s hg38.chr21_GL383579v2_alt    119581 45 +    201197 acaagac----agagagagagaacaagcaaaagggcaagcacaagaaca
s panTro5.chr21               8738426 45 +  33445071 acaagac----agagagagagaacaagcaaaagggcaagcacaagaaca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277538 45 +  46275980 acaagac----agagagagagaacaagcaaaagggcaagcacaagaaca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260115 45 -  13858734 acgagaa----agagagagagaacaagcaaaagggcaagcacaagaaca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284139 41 +  32716333 acaagaa--agagagagagagaacaagcaaaagggcaagt------aca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697884 47 - 185818997 atgagaa--agagagagagagaacaagcaaaagggcaagtacaagaaca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332526 47 - 192294377 atgagaa--agagagagagagaacaagcaaaagggcaagtacaagaaca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968614 47 -  30496662 atgagaa--agagagagagagaacaagcaaaagggcaagtacaagaaca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13480985 47 +  21915920 atgagaa--agagagagagagaACAAGCAAAAGGGCAAGTACAAGAACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982035 49 -  90373283 atgagaaagagagagagagagaacaagcaaaagggcaagtacaagaaca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486310 47 +   7543664 atgagaa--agagagagcgagaACAAGCAAAAGGGCAAGTACAAGAACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257536 43 -  13750039 atgaaaa------agagagagaacaagcaaaagggcaagtacaagaaca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516449 40 +  50472720 -----AG----AGAGAGAAGAAGCATGCAAAAGGTCAAGCACAAGAGCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697528 43 +  13128814 --aagag----agagagaaTAAGCATGCAAAAGGTCAAGCACAGGAGCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941252 40 -  14377064 -----AG----AGAGAGGATCAGCATGCAAAAGGTCAACTACAAGAGCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166257 45 -   9889416 gaaagag----agagagaataagcatgcaaaaggtcaagtacaagagca
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24882560 33 -  38779656 TTGACAG----AAAGAGAGAA------CAATAGGGTAA------GAACA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18062009 48 +  39895921 gtgagag-gggagaggggatagagaggaaagagagagaCGAACTGAGAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23715442 1318 +  47401472 I
e dasNov3.JH578070            2401745 83 +   3081153 I

a score=856983.000000
s hg38.chr21_GL383579v2_alt    119626 81 +    201197 agagcaTATCCAATATCAAATTCAACATAAATAA---------AACTGATAGACTCAATACCAATA-----TAAGAATAATTTACATACTATACA
s panTro5.chr21               8738471 81 +  33445071 agagcaTATCCAATATCAAATTCAACATAAATAA---------AACTGATAGACTCAATACCAATA-----TAAGAATAATTTACATGCTATACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277583 81 +  46275980 agagcaTATCCAATATCAAATTCAACATAAATAA---------AACTGATAGACTCAATACCAATA-----TAAGAATAATTTACATACTATACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260160 81 -  13858734 agagcaTATCCAATATCAAATTCAACATAAATAA---------AACTGATAGACTCAATACCAATA-----TAAGAATAATTTACATGTTATACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284180 81 +  32716333 agagcaTATCCAATATCAAATTCAACATAAATAA---------AACTGATAGACTCAATACCTATA-----TAAGAATAATTTACATACTATATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160697931 81 - 185818997 ggagcaTATCCAATATCAAATTTAACATAAATAA---------AACTAATAGACTCAATACCAATA-----TAAGAATAATTTATATACTATACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332573 81 - 192294377 ggagcaTATCCAATATCAAATTTAACATAAATAA---------AACTAATAGACTCAATACCAATA-----TAAGAATAATTTATATACTATACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968661 81 -  30496662 ggagcaTATCCAATATCAAATTTAACATAAATAA---------AACTAATAGACTCAATACCAATA-----TAAGAATAATTTATATACTATACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481032 81 +  21915920 GGAGCATATCCAATATCAAATTCAACATAAATAA---------AACTAATAGACTCAATACCAATA-----TAAGAATAATTTACATACTATACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982084 81 -  90373283 GTAGCATAACCAATATCAAATTCAACATAAATAA---------AACTGATAGACTCAATACCAATA-----TAAGAGTAATTTACATACTATACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486357 81 +   7543664 GGAGCATATCCAATATCAAATTCAACATAAATAA---------AACTAATAGACTCAATACCAATA-----TAAGAATAATTTACATACTATTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257579 81 -  13750039 ggaacaTATCCACTATCAAATTCAACATAAATAA---------AACTAATAGACTCAACACCAATA-----CAAGAATAATTTACATACTATACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516489 81 +  50472720 AGAGGATATCCAATATCAAATTCAACCTAAATAA---------AACTAATAGACTCAATCCCAATA-----TAAGAACAATTTACattttataaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697571 81 +  13128814 AGAGGATATCCAATATCAAATGCAACCTAAATAG---------AACTAATAGACTCAATATCaata-----taagaataatttacattctataaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941292 79 -  14377064 AGAGGATATCTAATATCAAATTCAACCTAAATAA---------AACTAATAGACTCAATATCAATA-----TAAGAATAATTTACATTC--TAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166302 81 -   9889416 agagGATATCCAATATCAAATTCAACCTAAATAA---------AACTAGTAGACTCAATACCAATA-----TAAGAATAATTTACATTCTATAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24882593 79 -  38779656 AGAGAATATCTAACATCAGATTTCACATTAA-AA---------AATTAGGAGACTC-ATATGCATA-----TAAGAGTAATTTATAAGATGTATA
i otoGar3.GL873528          C 0 I 676
s canFam3.chr31              18062057 94 +  39895921 ATGGGTTGCCCAGTATCACACTGCAAAAAAGTGAGAGAACCACAACTTCCAGTCCCAAGG-CAATATTTTTTCAGAAGGATTTTGTCTTTAGGAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2401828 75 +   3081153 ATCCTATATCTAATATCCAATTCTACATAAGTAA---------AATTAAAAGAC---ATAC---TG-----AAAAAATAGTTTAGATTATAAAAA
i dasNov3.JH578070          I 83 C 0
e micMur3.chr31              23715442 1318 +  47401472 I

a score=665056.000000
s hg38.chr21_GL383579v2_alt    119707 70 +    201197 TTATAT----CAAAATAT-CAGTTATTTAATAGAAA--TTAACTC--GATTGTTCAAGTTTGAATTACCAT-TTTTACA-t
s panTro5.chr21               8738552 70 +  33445071 TTATAT----CAAAATAT-CAGTTATTTAATAGAAA--TTAACTC--GATTGTTCAAGTTTGAATTACCAT-TTTTACA-t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277664 70 +  46275980 TTATAT----CAAAATAT-CAGTTATTTAATAGAAA--TTAACTC--GATTGTTCAAGTTTGAATTACCAT-TTTTACA-t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260241 72 -  13858734 TTATAT----CAAAATAT-CAATTATTTAATAGAAA--TTAACTCATGATTGTTCAAGTTTGAATTACCAT-TTTTACA-t
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284261 72 +  32716333 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTTGAATTACCAT-TTTTACA-t
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698012 72 - 185818997 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTCGAATTATCAT-TTTTACA-t
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332654 72 - 192294377 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTCGAATTATCAT-TTTTACA-t
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968742 72 -  30496662 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTCGAATTATCAT-TTTTACA-t
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481113 72 +  21915920 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTCAAATTATCAT-TTTTACA-t
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982165 72 -  90373283 ATGTAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTTGAATTATCAT-TTTTACA-t
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486438 72 +   7543664 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTTGAATTACCAT-TTTTACA-t
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257660 72 -  13750039 TTATAT----CAAAATAT-CAATTATTTAATAAAAA--TTAACTCGTGATTGCTCAAGTTTGAATTATCAT-TTTTACA-t
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516570 72 +  50472720 ttatat----aacaatat-caagtatttaataaaaa--ttaaCTCATGATTGTTCAAGTTTGAATTGATAG-TTTTAAA-T
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697652 68 +  13128814 ttatat----aa-aatat-taattatttaataaaaa--ttaaCTC---ATTGTTCAAGTTTGAATTACTAT-TTTTAAA-T
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941371 73 -  14377064 TTATAT----ATAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTTGAATTACTAT-TTTTaaatt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166383 69 -   9889416 TTATGT----GAAAATAT-CAATTATTTAATAAAAA--TTAACTCATGATTGTTCAAGTTTGAAT---TAT-TTTTAAA-T
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18062151 67 +  39895921 ataaat----aaataaac-aaattaattaat--caa--ttaattt---tGTATTTCATATCCAATATCCAA-TTTTACA-T
i canFam3.chr31             C 0 I 77
s dasNov3.JH578070            2401903 71 +   3081153 CTATATAATCCAGATTATAAAAATAAGTATTGGAAATTTTAATTCA---------AAATTTTAATTATCATACTATATG-T
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23715442 1318 +  47401472 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=51274.000000
s hg38.chr21_GL383579v2_alt    119777 5 +    201197 tttaa
s panTro5.chr21               8738622 5 +  33445071 tttaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277734 5 +  46275980 tttaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260313 5 -  13858734 tttaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284333 5 +  32716333 tttaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698084 5 - 185818997 tttaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332726 5 - 192294377 tttaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968814 5 -  30496662 tttaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481185 5 +  21915920 tttaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982237 5 -  90373283 tttaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486510 5 +   7543664 tttaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257732 5 -  13750039 tttaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516642 5 +  50472720 Gttaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697720 5 +  13128814 Gttaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941444 5 -  14377064 gttaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166452 5 -   9889416 Gttaa
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2401974 5 +   3081153 TTTAA
i dasNov3.JH578070          C 0 I 5825
e micMur3.chr31              23715442 1318 +  47401472 I
e canFam3.chr31              18062218 77 +  39895921 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=3523948.000000
s hg38.chr21_GL383579v2_alt    119782 387 +    201197 ttttaataaagtccagtttatcaagt--tttttttcatgtattccatctttagtattgtttctacaaagtcatcattatacccaagatcatttaggt-tttttcctgggttatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttctgaggggtgtaaga--tctatctacgtttatatttttgtatgtagatgtccagttgttccagcaccactcgttgaaaaaattattgttgcttctttctattgcctttgctcttttttcaaagacaagtggactatatttatgtggacctatttctgagctctctattctgatctattgatctgt---tttttttaattctttgccaatggcacactat
s panTro5.chr21               8738627 385 +  33445071 ttttaataaagtccagtttatcaa-t--tttttttcatgtattccatctttagtattgtttctagaaagtcatcattatacccaagatcatttaggt-tttttcctgggttatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttctgaggggtgtaaga--tctatctacatttatatttttgtatgtagatgcccagttgttccagcaccactcgttgaaaaaattatcgttgcttctttctattgcctttgctcttttttcaaagacaagtggactatatttatgtggacctatttctgagctctctattctgatctattgatctat---tttttt-aattctttgccaatggcacactat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22277739 386 +  46275980 ttttaataaagtccagtttatcaa-t--tttttttcatgtattccatctttagtattgtttctagaaagtcatcattatacccaagatcatttaggt-tttttcctgggttatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttctgaggggtgtaaga--tctatctacatttatatttttgtatgtagatgcccagttgttccagcaccactcgttgaaaaaattatcgttgcttctttctattgcctttgctcttttttcaaagacaagtggactatatttatgtggacctatttctgagctctctattctgatctattgatctat---tttttttaattctttgccaatggcacactat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260318 388 -  13858734 ttttaataaagtccagtttatcaa-ttatttttttcatgtattccatctttagtattgtttctagaaagtcatcattatacccaagatcatttaggt-tttttcctgggttatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttctgaggggtgtaaga--tctatctacatttatatttttgtatgtagatgtccagttgttccagcaccactcgttgaaaaaattattgttgcttctttctattgcctttgctcttttttcaaagacaagtggactatatttatgtggacctatttctgagctctctattctgatctattgatctat---tttttttaattctttgccaatggcacactat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284338 385 +  32716333 gtttaataaagcccagtttatcaatt--ttttttttatgtaatccgtctttagtattgtttctagaaagtcatcattatacccaagatcttttaggt-tttttcctgggttatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttctgaggggtgtaaga--tctatctagatttatatttttgtatgtagatgtccagttgttccagcaccacttgttgaaaaaattaccgttgcttccttgtattgcctttgctcttttttcaaagacaagtggactatatttatgtggacctatttctgagctctctattctgatctattgatctat---tttttt--attcttcgccaatggcacactgt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698089 385 - 185818997 ttttaataaaatccagtttattaa-ttatttttttcatgtattctgtctttaggattgtttctaaaatgtcatcattatacccaagatcatttaggt-gttttcctgcattatcttctagaagttttgtagttttgcatttttgttaggtctgtaatccagttttatgtaacttttcagagggatgtaaga--tctatctagatatatatttttgtatgtagatgtccaattgttccagcaccacttgttgaaaaagttatcattgcttccttgtattgcctttgctctt-tttcaaagacaagtggactatatttacgtgcatctatttctgaactctctattctcatctattgatctag---tttttt--attctttgccaatggcacactgt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167332731 385 - 192294377 ttttaataaaatccagtttattaa-ttatttttttcatgtattctgtctttaggattgtttctaaaatgtcatcattatacccaagatcatttaggt-gttttcctgcattatcttctagaagttttgtagttttgcatttttgttaggtctgtaatccagttttatgtaacttttcagagggatgtaaga--tctatctagatatatatttttgtatgtagatgtccaattgttccagcaccacttgttgaaaaagttatcattgcttccttgtattgcctttgctctt-tttcaaagacaagtggactatatttacgtgcatctatttctgaactctctattctcatctattgatctag---tttttt--attctttgccaatggcacactgt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4968819 385 -  30496662 ttttaataaaatccagtttattaa-ttatttttttcatgtattctgtctttaggattgtttctaaaatgtcatcattatacccaagatcatttaggt-gttttcctgcattatcttctagaagttttgtagttttgcatttttgttaggtctgtaatccagttttatgtaacttttcagagggatgtaaga--tctatctagatatatatttttgtatgtagatgtccaattgttccagcaccacttgttgaaaaagttatcattgcttccttgtattgcctttgctctt-tttcaaagacaagtggactatatttacgtgcatctatttctgaactctctattctcatctattgatctag---tttttt--attctttgccaatggcacactgt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481190 385 +  21915920 ttttaataaaatccagtttattaa-ttatttttttcatgtattctgtctttaggattgtttctaaaacgtcatcattatacccaagatcatttaggt-gttttcctgcattatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccaattttatgtaacttttcagaggggtgtaaga--tctatctagatacatatttttgtatgtagatgtcaaattgttccagcaccagttgttgaaaaaattatcattgtttgcttgtattgcctttgctctt-tttcaaagacaagtggactatatttacgtggatctatttctgaactctctattgtcatctattgatctag---tttttt--attctttgccagtggcacactct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982242 384 -  90373283 ttttaataacatccagtttattaa-tt-tttttttcatgtattctgtctttaggattgtttctaaaacgtcgtcattatacccaagatcatttaggt-gttttcctgcattatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttcagaggggtgtaaga--tctatctagatatatatttttgtatgtagatgtccaattgttccagcaccacttgttaaaaaaattatcattgcttccttgtattgtctgtgctctt-tttcaaagataagtggactatatttacgtggatctatttctgaactctctattctcatctattgatctag---tttttt--attctttgccaatggcatactgt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486515 386 +   7543664 ttttaataaaatccagtttatcaa-ttatttttttcatgtattctgtctttaggattgtttctaaaaagtcatccttgtacccaagatcatttaggt-tttttcctgcattatcttctagaagttttgtagttttgcattttcgttaggtctgtaatccagttttatgtaacttttctgaggggtgtaaga--tctatctagatatatatttttgtatgtagatgtccagttgttccagcaccacttgttgaaaaacttatcattgcttccttgtattgcctttgctcttatttcaaagacaagtggactttatttatgtggatctatttctgaactctctattctcatctattgatctag---tttttt--attctttgccaatggcacactgt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5257737 386 -  13750039 ttttaataaaatccagtttatcaa-ttatttttttcatgtattccgtctttaggattgtttctaaaaagtcatcattatacccaagatcatttaggt-tttttcctacattatcgtctagaagttttgtagttttgcatttttgttaggtctgtaatccagttctatgtaacttttcagaggggtgtaaga--tcgatctagatatatatttttgtatgtagatgcccaattgttccagcaccacttgttgaaaaaattatcattgcttccttgtattgcctttgctcttatttcaaagacaagtggactatatttatgtggatctatttctgaactctctattcttatctattgatctag---tttttt--attctttgccaatggcacactgt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26516647 392 +  50472720 ttttaataaagttcaggttacaaa-ccattttccttatgtatcatgtcttcattgttgtttctaaaaactcatcattatgcccaagatcacttagggtttttttctgtgctatcttctagaagttttgtaattttgcttttttgttaggtgtgtagtccagttttatgtaacttttctgagcggtgtaagatctctatctagatttatatttttgtttgtaggtgtccaattgttccagcaccacttgttgagaagattatcattacttcattgtattgcctttgctcttttcacaaactcaagtggactatatttatatggacatacttctgagctctctgttctgatccattgatctac--ttttttttaattctttgccaatggcaccctat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8697725 387 +  13128814 ttttaataaagtccagcttacaaa-ctatttttcttatgtatcatgtctttagtgttgtttctaaaaactcatcgttatacccaagatcatttaggg-ttttttctgcattatcttctagaagttttgtaattttgcatttttgttcggtttgtagtccagttttatgtaacttttctgagtggtgtaagatctctatctagatttatgcttttgtatgtagatgttcaattgtcccagcatcacttgttgaaaagattatcattgcttcattgtattgcctttgctcttttcacaac------tggactatatttatatggatatatttctgagctctctgttctgatccattgatctactttttttttttattctttgccagtggcgccctat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941449 387 -  14377064 ttttaataaagtccaggttacaaa-ctatttttcttatgtatcatgtctttagtgttgtttctaaaaactcatcattatacccaagatcatttaggg-ttttttatgcgttatcttctagaagttt--taattttgcatttttgttaggtgtgtagtccagttttatgtaacttttctgagtggtgtaaaatctctatctagatttatatttttgtatgtagatgtccaattgttccagcaccgcttgttgaaaagattatcattgcttcattgcattgcctttgctcttttcacaaacacaagtggactatatttacatggatatattt-tgaactctctgttctgatccattgatctac---ttttttttattctttgccagtggcaccctat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166457 390 -   9889416 ttttaataaagtccaggttacaaa-ctatttttcttatgtatcaagtctttagtgttgtttctaaaaactcatcactatacccaagatcgtttaggg-ttttttctgcattatcttctagaagttttgtaattttgcttttttgttaggtgtgtagtccagttttatgtaacttttttgagcggtgtaagatctctatctggatttatatttttgtatgtagatgtccaattgttccagcaacacttgttgaaaagattatcattgcttcattgtattgcctttgctcttttcacaaacacaagtggactatatttatatggatatatttctgaactctctgttctgatccattgatctac---ttttttttattatttgccaatggcaccctat
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23715442 1318 +  47401472 I
e dasNov3.JH578070            2401979 5825 +   3081153 I
e canFam3.chr31              18062218  77 +  39895921 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=1653082.000000
s hg38.chr21_GL383579v2_alt    120169 205 +    201197 attactgtagctttatagcaagacttgagattgagcagtgtcagtc--ctctgactttgttattctccttcaacattttgctgttttggatcttttgcctctccgtataaactttagaatctttagaaactttaatgatatccataaaataacttgctagaa-ttttaaatgggatttcattgagtccatagatcaa-ttgcaaagaac
s panTro5.chr21               8739012 205 +  33445071 attactgtagctttatagcaagacttgagattgagcagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttggatcttttgcctctccgtataaactttagaatctttagaaactttaatgatatccgtaaaataacttgctagaa-ttttaaatgggatttcattgagtccatagatcaa-ttgcgaagaac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278125 205 +  46275980 attactgtagctttatagcaagacttgagattgagcagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttggatcttttgcctctccgtataaactttagaatctttagaaactttaatgatatccgtaaaataacttgctagaa-ttttaaatgggatttcattgagtccatagatcaa-ttgcgaagaac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260706 205 -  13858734 attactgtagctttatagcaagacttgagattgagcagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttggatcttttgcctcttcgtatacactttagaatctttagaaactttaatgatagccataaaataacttgctagaa-ttttaaatgggatttcattgagtccatagatcaa-ttgcgaagaac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284723 205 +  32716333 attactgtaactttatagcaagacttgagattgagtagtgtcagtc--cactgactgtgttattctctttcaacattttgctattttggatcttttgcctctccgtataaactttagaatctttagaaactttaatgatatccataaaataacttgctagaa-ttttaaatgggatttcattgagtccatagatcaa-ttgcgaagaac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698474 202 - 185818997 attaccgtagctttatagcaagacttgagattgagtagtgtcagtcctctctgacgttgttattctccttcaacattttgctattttggatcttttgcctcttcgtataaaatttagaatc-------agtttaatgatatgaataaaataacttgctggaatttttaaatgggatttcattgagtccatagatcaatttgggaagaac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333116 202 - 192294377 attaccgtagctttatagcaagacttgagattgagtagtgtcagtcctctctgactttgttattctccttcaacattttgctattttggatcttttgcctcttcgtataaaatttagaatc-------agtttaatgatatgcataaaataacttgctggaatttttaaatgggatttcattgagtccatagatcaatttgggaagaac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969204 202 -  30496662 attaccgtagctttatagcaagacttgagattgagtagtgtcagtcctctctgactttgttattctccttcaacattttgctattttggatcttttgcctcttcgtataaaatttagaatc-------agtttaatgatatgcataaaataacttgctggaatttttaaatgggatttcattgagtccatagatcaatttgggaagaac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481575 199 +  21915920 attactgtagctttatagcaagacttgagattgagtagtgtcagtc--ctctgactttgttattctccttcaacattttgctcttttggatcttttgcctcttcgtataaaatttagaatc-------agtttaatgatatgcataaaataacttgctggaa-ttttaaatgagatttcattgagtccatagatcaatttgggaagaac
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982626 198 -  90373283 attactgtagctttatagcaagacttgagattgagcagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttggatcttttgcctcttcgtataaaatttagaatc-------agtttagtgat-tgcataaaataacttgctggaa-ttttaaatgggatttcattgagtccatagatcaatttgggaagaac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3486901 199 +   7543664 attactgtagctttatagcaagacttgagattgagtagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttggatcttttgcctctccgtataaaatttagaatc-------agtttaatgatatgcataaaataattcgctgaaa-ttttaaatgggatttcattgagtccatagatcaatttggggagaac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258123 199 -  13750039 attactgtagctttatagcaagacttgagattgagtagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttggatcttttgcctctccgtataaaatttagaatc-------agtttaatgatatgcatgaaataacttgctggaa-ttttaaatgggatttcacggagtccatagatcaatttgggaagaac
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517039 198 +  50472720 atta-cgtagctttatagcaagacttgagattgagtagtgtcagtc--ttctgactttgttattctccttcaacattttgctattttagatcttttgcctctccatataaagtttagaatc-------tgtttgatgctatccatgaaataacttgctgaaa-ttttaaatgggattttatttagtccatagatcaatttggggagaac
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698112 198 +  13128814 gtta-taaagctttatagcaagacttgagattgagtagtgtcagtc--ctctgactttgttattctccttcaacattttgctattttagatattttgcctttccatataaactttagaatc-------tgcttaatgctatccgtgaaataacttgctgaaa-ttttaaatgggattttatttagtccatagatcaatttgggaagaac
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13941836 197 -  14377064 atta-tgtaactttatagcaagacttgagattgagtagtgtcagtc--ctctgactttgttattctgcttcaacattttgctattttagatcctttgcctctccatacaaactttagaatc-------tgttt-atgctatccatgaaataacttgctgaaa-ctttaaatgggattttatttagtccatagatcaatttgggaagaac
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23715442 1318 +  47401472 I
e dasNov3.JH578070            2401979 5825 +   3081153 I
e canFam3.chr31              18062218  77 +  39895921 I
e aotNan1.NW_018487195v1      9166847   0 -   9889416 C
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=1343735.000000
s hg38.chr21_GL383579v2_alt    120374 153 +    201197 tgat-atgttgacaatattatctttctatccataaacatggataatttagttatttgatttttttaatctgaatcttgtggtttttcttcatatagagtctgtaaaaattttgttagattta---tatctaatatttca---tttt-tggggtgccaattt
s panTro5.chr21               8739217 153 +  33445071 tgat-atgttgacaatattatctttctatccataaacatggataatttagttatttgatttttttaatctgaatcttgtggtttttcttcatatagagtctgtaaaaattttgttagattta---tatctaatatttca---tttt-tgggttgccaattt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278330 153 +  46275980 tgat-atgttgacaatattatctttctatccataaacatggataatttagttatttgatttttttaatctgaatcttgtggtttttcttcatatagagtctgtaaaaattttgttagattta---tatctaatatttca---tttt-tgggttgccaattt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8260911 153 -  13858734 tgat-atgttgacaatattatctttctatccataaacatggataatttagttatttgatttttttaatctgaatcttgtggtttttcttcatatagagtctgtaaaaattttgttagattta---tatctaatatttca---tttt-tggggtgccaattt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9284928 152 +  32716333 tgat-acgttgacaatattatctttctatccataaacatggataatttaattatttgatttttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaactttgttagattta---tatctaatatttca---tttt-tggggtgctaattt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698676 152 - 185818997 tgat-atgttgacaatattatctttctatccaaaaacatggataatttagttatttgaattttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttgttggatttg---tatctaatatttca---tttt-tggagtgctaatat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333318 149 - 192294377 tgat-atgttgacaatattatctttctatccaaaaacatggataatttagttatttgaattttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttg---gatttg---tatctaatatttca---tttt-tggagtgctaatat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969406 150 -  30496662 tgataatgttgacaatattatctttctatccaaaaacatggataatttagttatttgaattttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttg------ttggattatctaatattacattttttt-tggagtgctaa---
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481774 152 +  21915920 tgat-atgttgataatattatctttctatccataaacatggataatttagttatttgaattttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttgttggattta---tatctaatatttca---tttt-tggagtgctaatat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982824 152 -  90373283 tgat-atgttgacaatattatctttctatccataaacatggataatttagttatttgaattttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttgttggattta---tatctaatatttca---tttt-tggagtgctaatat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487100 152 +   7543664 tgat-atgttgacaatattatctttctctccataaacatggataatttagttatttgaattttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttcttggattta---tatctaatatttca---tttt-tgggatgctaatat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258322 152 -  13750039 tgat-atgttgacaatattatctttctatccgtaaacatggataatttagttatttgagttttttaatctgaatcttgtgg-ttttcttcatatagattctgtacaaattttgttggattta---tatctaacatttca---tttt-tgggatgctaatat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517237 152 +  50472720 tgat-atcttgacaatattatttttctatccataaacatggataatttagttaattgaattttttaatctgaatcttgtag-ttttctccataaagatcctgtacaaatttgattagattta---tacctaatatttca---ttttggggggtgctaata-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698310 152 +  13128814 aaat-atcttgacaatattatctttctatccacaaacatgaataatttcgttaattgaattttttaatctgaatcttgtag-ttttctccatatagatcctgtacaaatttgattacatttg---tacctaatatttca---ttttgcagggtgctaata-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942033 148 -  14377064 tgat-atcttaacaatat----tttctatccataaacatggataatttagttaattgaattttttaatcagaatcttgtag-ttttctccatatagatcctgtacaaatttgattagattta---tacctaatatttca---ttttggggggtgctagta-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166847 151 -   9889416 tgat-atcttgacaatattacctttctatccataaacatggataatttagttaattgaa-tttttaatctgaatcttgtag-ttttctccatatagatcctgtacaaatttgattagattta---tacctaatatttca---ttttgggggttgctaata-
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23715442 1318 +  47401472 I
e dasNov3.JH578070            2401979 5825 +   3081153 I
e canFam3.chr31              18062218  77 +  39895921 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=374055.000000
s hg38.chr21_GL383579v2_alt    120527 39 +    201197 taaa---tattatgttttta--tctt-----ctacatgtttgttactgg
s panTro5.chr21               8739370 44 +  33445071 taaa---tattatgtttttg--tcttaacttctacatgtttgttactgg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278483 44 +  46275980 taaa---tattatgtttttg--tcttaacttctacatgtttgttactgg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261064 44 -  13858734 taaa---tattatgttttta--tcttaacttctacatgtttgttactgg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285080 42 +  32716333 taaatattattatgttttta--tctt-----ctacatgtttgttgctgg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698828 47 - 185818997 taaatattattatgttttaa--tcttaatttctacatgtttgttgctgg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333467 47 - 192294377 taaatattattatgttttaa--tcttaatttctacatgtttgttgctgg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969556 47 -  30496662 taaatattattatgttttaa--tcttaatttctacatgtttgttgctgg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481926 47 +  21915920 taaatattattatgttttaa--tcttaatttctacatgtttgttgctgg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19982976 47 -  90373283 taaatattattatgttttaa--tcttaatttctacgtgtttgttgctgg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487252 44 +   7543664 taaa---tattatgttttaa--tcttaatttctacatgtttgttgctgg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258474 47 -  13750039 taaatattattatgttttaa--tcttaacttctacatgtttgttgctgg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517389 47 +  50472720 taaatatcattatgtttttg--ttttaatttacacacctttgttgctgg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698462 47 +  13128814 taaatatcattatgttttta--ttttaatttacacacctttgttgctgg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942181 47 -  14377064 taaatatcattatgttttta--ttttaatttccacacctttgttgctgg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9166998 47 -   9889416 taaatatcattatgttttta--ttttaatttccacacctttgttgctgg
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18062295 39 +  39895921 TAGA---TCTTATATTTCAAGTTCTTAATTATCATTAACTTA-------
i canFam3.chr31             I 77 C 0
e micMur3.chr31              23715442 1318 +  47401472 I
e dasNov3.JH578070            2401979 5825 +   3081153 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=823999.000000
s hg38.chr21_GL383579v2_alt    120566 76 +    201197 -taATTATTATATTTTAAAGTTATATTGAGGAGATAATTGATATTAAACCTTTATAAATTAGACAT---ACTCTCAATTT
s panTro5.chr21               8739414 76 +  33445071 -taATTATTATATTTTAAAGTTATATTGAGGAGATAATTGATATTAAACCTTTATAAATTAGACAT---ACTCTTAATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278527 76 +  46275980 -taATTATTATATTTTAAAGTTATATTGATGAGATAATTGATATTAAACCTTTATAAATTAGACAT---ACTCTTAATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261108 76 -  13858734 -taATTATTATATTTTAAAGTTATATTGAGGAGATAATTGATATTAAACCTTTCTAAATTAGACAT---ACTCTCAATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285122 76 +  32716333 -taATTATTATATTTTAAAGTTATATTGAGGAGATAATTGATATTAAACCTTTACAAATTAGACAT---ACTCTCAATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698875 76 - 185818997 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAATTGATATTAGACCTTTATAAACTGGACAA---GCTCTCAATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333514 76 - 192294377 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAATTGATATTAGACCTTTATAAACTGGACAA---GCTCTCAATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969603 76 -  30496662 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAATTGATATTAGACCTTTATAAACTGGACAA---GCTCTCAATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13481973 76 +  21915920 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAATTGATATTAGACCTTTATAAATTGGACAA---GCTCTCAATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983023 76 -  90373283 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAATTGATATTAGACCTTTATAAATTGGACAA---GCTCTCAATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487296 76 +   7543664 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAGTTGATATTAGACCTTTATAAATTGGACAA---GCTCTCAATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258521 76 -  13750039 -taATTATTATATTTTAAAGTTATATTGAGGAGGTAATTGATATTAGACCTTTATAAATTGGATAA---GCTCTCGATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517436 75 +  50472720 -taATTATTATATTTT-AAGTGATATTAAGGAGGTAATTGATATTAGACATTTATAAATCAGATAT---ATTTTTAATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698509 75 +  13128814 -taATTATTATATTTT-AAGTGATATTAAGGAGGTAATTGATATTAGACATTTATAAATCAGATAT---ATTTTCAATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942228 75 -  14377064 -taATTATTATATTTT-AAGTGATATTAAGGAGGTAATTGATATTAGATGTTTATAAATCAGATAT---ATTTTCAACTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167045 75 -   9889416 -taATTATTGTATTTT-AAGTTGTATTAAGGATGTAATTGATATTAGACATTTATAAATCAGATAT---ATTTTCAATTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23716760 76 +  47401472 -taATTATTACATTTTAAAGTTATATTAAGGGGTTAATTTATATTAGACACTAACTAATTAGACAT---ACACTCAATTT
i micMur3.chr31             I 1318 I 1097
s canFam3.chr31              18062334 80 +  39895921 AATGTCATTAGATTTTGAAGTTATATCTAGAGGATAATTGATATTAGACATTTAAAAATAAGACATAGCATTCTCCATTT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2401979 5825 +   3081153 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=154928.000000
s hg38.chr21_GL383579v2_alt    120642 14 +    201197 CATATAAATTTTCA
s panTro5.chr21               8739490 14 +  33445071 CATATAAATTTTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278603 14 +  46275980 CATATAAATTTTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261184 14 -  13858734 CATATAAATTTTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285198 14 +  32716333 CATATAAATTTTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698951 14 - 185818997 CATATAAATTTTCG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333590 14 - 192294377 CATATAAATTTTCG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969679 14 -  30496662 CATATAAATTTTCG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482049 14 +  21915920 CATATAAATTTTCG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983099 14 -  90373283 CATATAAATTTTCG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487372 14 +   7543664 CATATAAATTTTCG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258597 14 -  13750039 CATATAAATTTTCG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517511 14 +  50472720 CATATAAATTTTCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698584 14 +  13128814 CATATAAATTTTCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942303 14 -  14377064 CATATAAATTTTCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167120 14 -   9889416 CATACAAATTTTCA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18062414 13 +  39895921 -CTAGAAATCTTCA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23716836 1097 +  47401472 I
e dasNov3.JH578070            2401979 5825 +   3081153 I
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=66015.000000
s hg38.chr21_GL383579v2_alt    120656 11 +    201197 TGCTTTACATG
s panTro5.chr21               8739504 11 +  33445071 TGCTTTACATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278617 11 +  46275980 TGCTTTACATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261198 11 -  13858734 TGCTTTACATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285212 11 +  32716333 TGCTTTACCTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698965  9 - 185818997 TGCTTTACA--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333604  9 - 192294377 TGCTTTACA--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969693  9 -  30496662 TGCTTTACA--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482063  9 +  21915920 TGCTTTACA--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983113  9 -  90373283 TGCTTTACA--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487386  9 +   7543664 TGCTTTACA--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258611  9 -  13750039 TGCTTTACA--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517525 11 +  50472720 TTCTTTACATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698598 11 +  13128814 TTCTTTACATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942317 11 -  14377064 TTCTTTACATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167134 11 -   9889416 TTCTTTACATG
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23716836 1097 +  47401472 I
e dasNov3.JH578070            2401979 5825 +   3081153 I
e canFam3.chr31              18062427  0 +  39895921 C
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=563157.000000
s hg38.chr21_GL383579v2_alt    120667 59 +    201197 TTGTTCAGAGTATTTAGCACAAATAATCTACTAAAAATAGAAACAGTAGCAGTAATATT
s panTro5.chr21               8739515 59 +  33445071 TTGTCCAGAGTATTTAGCACAAATAATCTACTAAAAATAGAAACAGTAGCAGTAATATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278628 59 +  46275980 TTGTCCAGAGTATTTAGCACAAATAATCTACTAAAAATAGAAACAGTAGCAGTAATATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261209 59 -  13858734 TTGTCCAGAGTATTTAGCACAAATAATCTACTAAAAATAGAAACAGTAGCAGTAATATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285223 55 +  32716333 TTGTCCAGAGTATTTAGTACAAATA----ACTAAAAATGGAAACAGTAGCAGTAATATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160698974 54 - 185818997 -----CAAAGTATTtagtacaaataatctactaaaaatagaaatagtagcagtaatatt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333613 54 - 192294377 -----CAAAGTATTtagtacaaataatctactaaaaatagaaatagtagcagtaatatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969702 54 -  30496662 -----CAAAGTATTtagtacaaataatctactaaaaatagaaatagtagcagtaatatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482072 54 +  21915920 -----CAAAGTATTtagtacaaataatctactaaaaatagaaatagtagcagtaatatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983122 54 -  90373283 -----CAAAGTATTtagtacaaataatctactaaaaatagaaatagtagcagtaatatt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487395 54 +   7543664 -----CAAAGTATTtagtacaaataatctactaaaaatagaaatagtagcagtaatatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258620 53 -  13750039 -----CAAAGTATTTAGTACAAATAATCCAC-AAAaatagaaatagtagcagtaatatt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517536 59 +  50472720 TTTTTCAGAGCATTTAGTACAAGTAATCTACTAAAGATAGAAACATCAGCAGTAATCTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698609 59 +  13128814 TTTTTCAGAGCATTTAGTACAAGTAATCTACTAAAGATAGAAACAGTAGCAGTAATATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942328 59 -  14377064 TTTTTCAGAGCATTTAGTACAAGTAATCTACTAAAGATAGAAACAGTAGCAGTAATATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167145 59 -   9889416 TTTTTCAGAGCATTTAGTACAAGTAATCTACTAAAGATAGAAACAGTAGCAGTAATATT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2407804 59 +   3081153 TTGTATGAATCATTTTTTAGAAATAATTTAGCAAAAATAGTAATAGTAGTCATAGTAGT
i dasNov3.JH578070          I 5825 C 0
e micMur3.chr31              23716836 1097 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e otoGar3.GL873528           24882672 676 -  38779656 I

a score=302144.000000
s hg38.chr21_GL383579v2_alt    120726 27 +    201197 AACAATTAAA---GTGAATAAAGTTAAAGT
s panTro5.chr21               8739574 27 +  33445071 AACAATTAAA---GTGAATAAAATTAAAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278687 27 +  46275980 AACAATTAAA---GTGAATAAAATTAAAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261268 27 -  13858734 AACAATTAAA---GTGAATAAAATTAAAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285278 27 +  32716333 AACAATTAAA---GTGAATAAAGTTAAAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699028 27 - 185818997 aacaattaaa---gtgaataAAGTTAAAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333667 27 - 192294377 aacaattaaa---gtgaataAAGTTAAAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969756 27 -  30496662 aacaattaaa---gtgaataAAGTTAAAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482126 27 +  21915920 aacaattaaa---gtgaataAAGTTAAAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983176 27 -  90373283 aacaattaaa---gtgaataAAGTTAAAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487449 27 +   7543664 aacaattaaa---gtgaataAAGTTAAAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258673 27 -  13750039 aacaattaaa---gtgaataAAGTTAAAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517595 24 +  50472720 ---AATTAAA---GTGAATAAAATTAaaga
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698668 27 +  13128814 AACAATTAAA---GTGAATAAAATTAAAGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942387 24 -  14377064 ---AATTAAA---GTAAATAAAATTAAAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167204 27 -   9889416 AACAATTAAA---GTGAATAAAATTAAAGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24883348 30 -  38779656 AACAATTCAAATTGTAAAATAAATGCAATC
i otoGar3.GL873528          I 676 C 0
s dasNov3.JH578070            2407863 27 +   3081153 AACAACTAAA---ATAAAGAGAGTTTATGT
i dasNov3.JH578070          C 0 I 4497
e micMur3.chr31              23716836 1097 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C

a score=672031.000000
s hg38.chr21_GL383579v2_alt    120753 70 +    201197 AGAATaaggagaaataaaaaacttgacctataac----caataacaaggttat-agaattagttctcaaaattct
s panTro5.chr21               8739601 71 +  33445071 AGAATaaggagaaataaaaaacttgacctataac----caataacaaggttattagaattagttctcaaaattct
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278714 71 +  46275980 AGAATaaggagaaataaaaaacttgacctataac----caataacaaggttattagaattagttctcaaaattct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261295 70 -  13858734 AGAATaaggagaaataaaaaacttgacgtataac----caataacaaggttat-agaattagttctcaaaattct
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285305 70 +  32716333 AGAATaaggagaaataaaaaacttgacctataac----caataacaaggttat-agaattagttctcaaaattct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699055 74 - 185818997 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333694 74 - 192294377 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969783 74 -  30496662 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482153 74 +  21915920 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983203 74 -  90373283 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487476 74 +   7543664 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258700 74 -  13750039 AGAATaaggataaatgaaaaacttgacctataacaattctataacaaagttat-agaattagttctcaaaattct
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517619 70 +  50472720 agaataaggaaaaataaaatacttgacccataat----gaataacaaagttat-agagttagttctcaaaattct
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698695 69 +  13128814 AGAATaaggaaaaataaaatccttgacccataat----gaataataaagttgt-agaattagttctc-aaattct
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942411 70 -  14377064 AGAATaaggaaaaataaaatacttgacccataat----gaataacaaagttat-agaattagttctcaaagttct
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167231 70 -   9889416 AGAATaaggaaaaataaaatacttgacccatagt----gaataacaaagttat-agaattagttctcaaaattct
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24883378 64 -  38779656 AGTTGaaggagaaatttaaaacttgactcacgta----------cagaggtaa-tgaattagttttgaaaaatct
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23716836 1097 +  47401472 I
e dasNov3.JH578070            2407890 4497 +   3081153 I
e canFam3.chr31              18062427  0 +  39895921 C

a score=521493.000000
s hg38.chr21_GL383579v2_alt    120823 45 +    201197 tcccagaaggaaaagcctagttccagatggcttcaTCAAGA--AAGG
s panTro5.chr21               8739672 45 +  33445071 tcccagaaggaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278785 45 +  46275980 tcccagaaggaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261365 45 -  13858734 tcccagaaggaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285375 45 +  32716333 tcccagaaagaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699129 45 - 185818997 tcccacaaagaaaagcctagtcccagatggcttcaTCAAGA--AACG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333768 45 - 192294377 tcccacaaagaaaagcctagtcccagatggcttcaTCAAGA--AACG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969857 45 -  30496662 tcccacaaagaaaagcctagtcccagatggcttcaTCAAGA--AACG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482227 45 +  21915920 tcccacaaagaaaagcctagtcccagatggcttcaTCCAGA--AAGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983277 45 -  90373283 tcccacaaagaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487550 45 +   7543664 tcccacaaagaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258774 45 -  13750039 tcccacaaagaaaagcctagtcccagatggcttcaTCAAGA--AAGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517689 45 +  50472720 tcccacaaagaaaagcctaatcccagatgacttcaTCAAGA--AAGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698764 45 +  13128814 tcccacaaagaaaagccaagtcccagatgactttaTCAAGA--AAGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942481 45 -  14377064 tcccaaaaagaaaagcctagtcccggatgatttcaTCAAGA--AAGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167301 45 -   9889416 tctcacaaagaaaagcctagtcccagatgacttcaTCAAGA--AAGG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24883442 41 -  38779656 ---catgaagaaaagcctagtcttccatggcttcaACAAGG--AAG-
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2412387 47 +   3081153 TCCTGAGAGGAAAATTCTCAACCCAGATGACTTGATCAAGAGGAAGG
i dasNov3.JH578070          I 4497 C 0
e micMur3.chr31              23716836 1097 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C

a score=381288.000000
s hg38.chr21_GL383579v2_alt    120868 47 +    201197 AAAATGTTAAGAACTGAAATGTAATCTCTA--ATTCTCCCTCAGTGTGG----------------
s panTro5.chr21               8739717 47 +  33445071 AAAATGTTAAGAACTGATATGTAATCTCTA--ATTCTCCCTCAGTGTGG----------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278830 47 +  46275980 AAAATGTTAAGAACTGAAATGTAATCTCTA--ATTCTCCCTCAGTGTGG----------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261410 42 -  13858734 AAAATGTTAAGAACTGA-----AATCTCTA--ATTCTCCCTCAGTGTGG----------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285420 47 +  32716333 AAAATGTTAAGAACTGAAATGTAATCTTTA--ATTCTCCCTCAGTGTGG----------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699174 47 - 185818997 AAAATGTTAACAACTGAAAAGTAATCTCTA--ATTCTCCCTCACTGTGG----------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333813 47 - 192294377 AAAATGTTAACCACTGAAAAGTAATCTCTA--ATTCTCCCTCACTGTGG----------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969902 47 -  30496662 AAAATGTTAACAACTGAAAAGTAATCTCTA--ATTCTCCCTCACTGTGG----------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482272 47 +  21915920 AAAATGTTAACAACTGAAAAGTAATCTCTA--ATTCTCCCTCACTGTGG----------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983322 47 -  90373283 AAAATGTTAACAACTGAAAAGTAATCTCTA--ATTCTCCCTCACTGTGG----------------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487595 47 +   7543664 AAAATGTTAGCAACTGAAAAGTAATCTCTA--ATTCTCCCTCACTGTGG----------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258819 47 -  13750039 AAAATGTTAACAACTGGAAAGTAATCTCTA--ATTCTCCCTCAGGGTGG----------------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517734 47 +  50472720 AAAATGTTAACAACTGAAATGTAATCTCTA--ATTATCCTTCAGTGTGG----------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698809 47 +  13128814 AAAATGTTAACAACTCAAATGTAATCTCTA--ATTATCCTTCATTGTGG----------------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942526 47 -  14377064 AAAATGTTAACAACTGAAATGTAATCTCTA--ATTATCCTTCCGTGTGC----------------
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24883483 49 -  38779656 AAAGCATTAGCATTGGATGTGACATCTCTCTTACGCTACCTCAGGAGAA----------------
i otoGar3.GL873528          C 0 I 9
s dasNov3.JH578070            2412434 62 +   3081153 AATGTATCAACAGTCTGAATATAAT-TCTC--ATCCTACTTCAATGATGCAATGTCAACTGTAAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23716836 1097 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C

a score=931630.000000
s hg38.chr21_GL383579v2_alt    120915  92 +    201197 AATACATAAGATTGTACTAGATATAGACT----A------------ATGTTCTTGATGAGATTGTTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACATCTTGT
s panTro5.chr21               8739764  92 +  33445071 AATACATAAGATTGTACTAGATATAGACT----A------------ATGTTCTTGATGAGATTGTTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACATCTTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278877  92 +  46275980 AATACATAAGATTGTACTAGATATAGACT----A------------ATGTTCTTGATGAGATTGTTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACATCTTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261452  92 -  13858734 AATACATAAGATTGTACTAGATATAGACT----A------------ATGTTCTTGATGAGATTGTTTAGTGAATGCTGTTCAAAGGATGTATCTATCAAACATCTTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285467  92 +  32716333 AATACATAAGATTGTACTAGATATAGACT----A------------ATGTTCTTGATGAGATTATTTAGTGAACGCTGTTCAAAGGATGTATCTGTCAAATATCTTGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699221  91 - 185818997 AATATGT-ACATTCTACTAGATATAGACT----A------------ATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGGCAAACACCTTGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333860  91 - 192294377 AATATGT-ACATTCTACTAGATATAGACT----A------------ATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGGCAAACACCTTGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4969949  91 -  30496662 AATATGT-ACATTCTACTAGATATAGACT----A------------ATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGGCAAACACCTTGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482319  92 +  21915920 AATATGTCAGATTCTACTAGATATAGACT----A------------ATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACATCTTGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983369  92 -  90373283 AATATGTCAGATTCTACTAGATATAAACT----A------------ATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACACCTTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487642  92 +   7543664 AATATGTCAGATTCTACTAGATATAGACT----A------------ATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACACCTTGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258866 104 -  13750039 AATATGTCAGATTCTACTAGATATAGACT----GGTATATGATTATATGTTCTTGATTAGATTATTTAGTGAATGCTGTTCAAAGGATGTATCTGTCAAACACCTTGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517781  92 +  50472720 AATACATAAGGTTTTACTAGTTATAGACT----A------------ATGTTGTTGATGAGATTATTTACTGAATGCTGTTCAAAGGATGTAGCTGTCAAACATCTTGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698856  92 +  13128814 ACTACATAAGATTGTACTAGTTACAGACT----A------------ATGTTCTTGATAAGATTATTTACTGAATGCTGTTCAAAGGATGTAGCTATCAAACAGCTTGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942573  92 -  14377064 ACTACATAAGATTGTACTAGTTATAGACT----A------------ATGTTCTTGATGAGATTATTTACTGAATGCTCTTCAAAGGATGTAGCTGTCAAACAGCTTGT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23717933  92 +  47401472 AATGCATAAGATTGTATCAGATATAACCT----A------------ATGTTATTGATGAGATCATTTACTAAAGGCTATTATAAAAATGTATCTGTCAAGCATCTTGT
i micMur3.chr31             I 1097 I 109
s otoGar3.GL873528           24883541  91 -  38779656 AATGCATAAGATTGTCACAAATGTAGGCT----A------------ATGTTCTTGATGAGATTGTTTACTAAAGGGTATTATAAGAA-ATCTTTGTTGAGAATCTTAT
i otoGar3.GL873528          I 9 I 4
s dasNov3.JH578070            2412496  95 +   3081153 AATGCAC-AAATTTTACCAAATATAAGATCAAGA------------ATGGTCTTAACAAGGTTATGTATTGATTACTGTTATAAGAATGTATCAGTCAAGCAAAATGT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18062427   0 +  39895921 C
e aotNan1.NW_018487195v1      9167346   0 -   9889416 C

a score=650210.000000
s hg38.chr21_GL383579v2_alt    121007 78 +    201197 -CTGTGCTGTTGAAATGTTT--TTTTACTTATCTATACTTGTTAAAATGCAGC-AAAGGAATGAAACTAGTCTGACACTTCA
s panTro5.chr21               8739856 78 +  33445071 -CTGTGCTGTTGAAATGTTT--TTTTAGTGATCTATAATTGTTAAAATGCAGC-AAAGGAATGAAACTAGTCTGACCCTTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22278969 78 +  46275980 -CTGTGCTGTTGAAATGTTT--TTTTAATGATCTATAATTGTTAAAATGCAGC-AAAGGAATGAAACTAGTCTGACCCTTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261544 78 -  13858734 -CTGTGCTGTTGAAATGTTT--TTTTACTTATCTATAATTGTTAAAATGCAGC-GAAGGAATGAAACTAGTCTGACACTTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285559 78 +  32716333 -CTGTGCTGTTGAAATGTTT--TTTTACTTATCTATAATTGTTAAAATGCAGC-AAAGGAATGAAACTAGTCTGACACTTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699312 78 - 185818997 -CTGTGCTGTCGAAATGTTT--TTTTACTTATCTATAATTGTTAAAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167333951 78 - 192294377 -CTGTGCTGTCGAAATGTTT--TTTTACTTATCTATAATTGTTAAAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970040 78 -  30496662 -CTGTGCTGTCGAAATGTTT--TTTTACTTATCTATAATTGTTAAAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482411 78 +  21915920 -CTGTTCTTTCGAAATGTTT--TTTAACTTATCTGTAATTGTTAAAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983461 78 -  90373283 -CTGTGCTGTTGAAATGTTT--TTTAACTTATCTATAATTGTTAAAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487734 78 +   7543664 -CTGTGCTGTCGAAATGTTT--TTTTACTTATCTATAATTGTTAAAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5258970 78 -  13750039 -CTGTGCTGTCGAAATGTTT--TTTTACTTATCTGTAATTGTTACAATGCGGC-AAAGGAATGAAACTAGTCTGACACTTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517873 72 +  50472720 -CTGTGCTGTCAAAACGGAT--TCTTACTTATCTATA------AAAATCCAGCAAAAGAAATGAAGCTAGTCTGACACTTT-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8698948 73 +  13128814 -CTGTGCTGTCGAAATGGAT--TCTTACTTATCCATA------AAAATCCAGCAAAAGAAATGAAGCTAGTCTGACACTTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942665 73 -  14377064 -CTGTGCTGTCGAAATGGAT--TCTTACTTATCTACA------AAAATCCAGCAAAAGAAATGAAGCTAGTCTGACACTTCA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24883636 79 -  38779656 -ATGTTTTATGACAATGGTTTATTTCACTTATTT-TAATTGTTGAAA-GCAGCAAAAGAAATAAAGCTAACCTAACATTTCA
i otoGar3.GL873528          I 4 I 309
s dasNov3.JH578070            2412591 66 +   3081153 CCTTGGTACTAGTATTGTTT--GTTTGCTTACCTATAATT--------------GATTAAATGAAGTGACTCTAACCCCTCT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23718025 109 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C

a score=230852.000000
s hg38.chr21_GL383579v2_alt    121085 25 +    201197 AAGAGTGTTACATGCTTATCGAAGA
s panTro5.chr21               8739934 25 +  33445071 AAGAGTGTTACATGCTTAGCGAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279047 25 +  46275980 AAGAGTGTTACATGCTTAGCGAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261622 25 -  13858734 AAGAGTGTTACATGCTTAGCAAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285637 25 +  32716333 AAGAGTGTTACATGCCTAGCAAAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699390 25 - 185818997 AAGAGTGTTACATGCCTAGCAAAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334029 25 - 192294377 AAGAGTGTTACATGCCTAGCAAAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970118 25 -  30496662 AAGAGTGTTACATGCCTAGCAAAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482489 25 +  21915920 AAGAGTGTTACATGCCTAGCAAAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983539 25 -  90373283 AAGAGTGTTACATGCCTAGCAAAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487812 25 +   7543664 AAGAGTGTTACATGCCTAGCAAAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259048 25 -  13750039 AAGAGTGTCACATGCCTAGCAAAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517945 24 +  50472720 -AGAGTGTTACATGCCTAGCAAAGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699021 25 +  13128814 AAGAGTGTTACATGCCTAGCAAAGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942738 25 -  14377064 AAAAGTGTTACATGCCTAGCAAAGT
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2412657 22 +   3081153 ---GATGGTATTTGACTAGCAAGGT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23718025 109 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=302785.000000
s hg38.chr21_GL383579v2_alt    121110 29 +    201197 GTGAAAGTGGAAAGAATGCAGAAATGAAA
s panTro5.chr21               8739959 29 +  33445071 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279072 29 +  46275980 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261647 29 -  13858734 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285662 29 +  32716333 GTGAAAGTGGAAAGAATGCAGAAATAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699415 29 - 185818997 GTGAAAGTGGAAAGAATACAGAAATGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334054 29 - 192294377 GTGAAAGTGGAAAGAATACAGAAATGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970143 29 -  30496662 GTGAAAGTGGAAAGAATACAGAAATGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482514 29 +  21915920 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983564 29 -  90373283 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487837 29 +   7543664 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259073 29 -  13750039 GTGAAAGTGGAAAGAATGCAGAAATGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517969 28 +  50472720 GTGAACGT-AAAAGAATGCAGAAATGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699046 28 +  13128814 GTGAAAGT-AAAAGAATGCAGAAAAGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942763 28 -  14377064 GTGAAAGT-AAAAGAATGCAGAAATGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23718134 29 +  47401472 GTGAAAGTGGAAAGGATACAGAAATGAAA
i micMur3.chr31             I 109 I 95
s dasNov3.JH578070            2412679 28 +   3081153 GTAAAAGTGGAAAGAACACAAAATCAAA-
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=376103.000000
s hg38.chr21_GL383579v2_alt    121139 41 +    201197 GTTTCTTTCTGAGTTGAGGTGGTTCCCAGTCAGCACTGATT
s panTro5.chr21               8739988 41 +  33445071 GTTTCTTTCTGAGTTGAGGTGGTTCCCAGTCAGCACTGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279101 41 +  46275980 GTTTCTTTCTGAGTTGAGGTGGTTCCCAGTCAGCACTGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261676 41 -  13858734 GTTTCTTTCTGAGTTGAGGTGGTTCCCAGTCAGCACTTATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285691 41 +  32716333 GTTTCTTTCTGAGTTGAGGTGGTTCCCAGTCAGCACTGATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699444 41 - 185818997 GTTTCTTTCAGAGTTGAGGTGGTTCCCAGTCAGCAGTGATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334083 41 - 192294377 GTTTCTTTCAGAGTTgaggtggttcccagtcagcagtgatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970172 41 -  30496662 GTTTCTTTCAGAGTTgaggtggttcccagtcagcagtgatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482543 41 +  21915920 GTTTCTTTCAGAGTTGAGGTGGTTCCCAGTCAGCAGTGATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983593 41 -  90373283 GTTTCTTTCAGAGTTGAGGTGGTTCCCAGTCAGCAGTGATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487866 41 +   7543664 GTTTCTTTCAGAGTTGAGGTGGTTCCCAGTCAGCAGTGATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259102 41 -  13750039 GTTTCTTTCAGAGTTGAGGTGGTTCCCAGTCAGCAGTGATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26517997 37 +  50472720 G----TTTCTAAGTTGAGGTGGTTTCCATTCAGCACTGATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699074 41 +  13128814 GTTTCTTTCTAAGTTGAAGTGGTTCCCATTCAGCACTGATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942791 41 -  14377064 GTTTCTTTCTAAGTTGAGGTGGTTCCCATTCAGCACTGATT
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2412707 41 +   3081153 GATTTTCTCTGAATTGAGTTGATTCACATACAGAACAAATT
i dasNov3.JH578070          C 0 I 258
e micMur3.chr31              23718163 95 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=450507.000000
s hg38.chr21_GL383579v2_alt    121180  56 +    201197 ACTGT--------------------------------------------------------AAAAAAGCACATTCCTGTGAAGTGTGATTAAAGATATCACTATTTATGCTT
s panTro5.chr21               8740029  56 +  33445071 ACTGT--------------------------------------------------------AAAAAAGCACATTCCTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279142  56 +  46275980 ACTGT--------------------------------------------------------AAAAAAGCACATTCCTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261717  56 -  13858734 ACTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGTCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285732  56 +  32716333 ACTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699485  56 - 185818997 ACTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334124 110 - 192294377 actgcacttcagcctgggcgacagaccgagactccgtctc--aaaaaaaaaaaaaaaaaaaaaaaaaGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970213 112 -  30496662 actgcacttcagcctgggcgacagaccgagactccgtctcaaaaaaaaaaaaaaaaaaaaaaaaaaaGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482584  56 +  21915920 ACTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983634  56 -  90373283 ATTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487907  56 +   7543664 ACTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259143  56 -  13750039 ACTGT--------------------------------------------------------AAAAAAGCACATTCTTGTGAAGTGTGATTAAAGATATCACTATTTATGCCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518034  56 +  50472720 ACTGT--------------------------------------------------------AAAAAAGCACGGTCTTATGCAGTGTGATTAAAGATAACACTCTTTATGCCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699115  56 +  13128814 ACTGT--------------------------------------------------------AAAAAAGCACAATCTTATGCAGTGTGATTAAAGATATCACTATTTATGCCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942832  55 -  14377064 ACTG---------------------------------------------------------AAAAAAGCACAATCTTATGCAGTGTGATTAAAGATATCACTATTTATGCCT
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23718163  95 +  47401472 I
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427   0 +  39895921 C
e aotNan1.NW_018487195v1      9167346   0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=396402.000000
s hg38.chr21_GL383579v2_alt    121236 42 +    201197 GGGAGTCGCAAAAGCCTCACTATATTCTTTCTTAAAACTAAT
s panTro5.chr21               8740085 42 +  33445071 GGGAGTCGCAAAAGCCTCACTATATTCTTTCTTAAAACTAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279198 42 +  46275980 GGGAGTCGCAAAAGCCTCACTATATTCTTTCTTAAAACTAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261773 42 -  13858734 GGGAGTCGCAAAAGCCTCACTATATTCTTTCTTAAAACTAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285788 42 +  32716333 GGGAGTCACAAAAGCCTCACTATATTCTTTCTTAAAGCTAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699541 42 - 185818997 GGGAGTCAGAAAAGCCTCACCATATTCTTTCTTAAAGCTAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334234 42 - 192294377 GGGAGTCAGAAAAGCCTCACCATATTCTTTCTTAAAGCTAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970325 42 -  30496662 GGGAGTCAGAAAAACCTCACCATATTCTTTCTTAAAGCTAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482640 42 +  21915920 GGGAGTCAGAAAAGCCTCACCATATTCTTTCTTAAAGCTAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983690 42 -  90373283 GGGAGTCAGAAAAGCCTCAACATATTCTTTCTTAAAGCTAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3487963 42 +   7543664 GGGAGTCAGAAAAGCCTCACCATATTCTTTCTTAAAGCTAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259199 40 -  13750039 GGGAGTCAGAAAAGCCTCACCATAT--TTTCTTAAAGCTAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518090 42 +  50472720 GGGAGCCACAAAAGCCTCACTCTATTCTTTCTTAAAGCTAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699171 41 +  13128814 AGGAACCACAAAA-CCTCACTATATTCTTTCTTACAGCTAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942887 42 -  14377064 GGGAGCCACAAAAGCCTCACTATATTCTTTCTTAAAGCTAAT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23718258 42 +  47401472 GGGAATCACAAAAGTGTCACTATATTCTTTCTTAAAGCTAAT
i micMur3.chr31             I 95 I 532
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=2174169.000000
s hg38.chr21_GL383579v2_alt    121278 256 +    201197 GTACCGTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAACTAATTAATTTGTTGATGACACATATGCCAAAGATTTATATTAAACCGAAAA--AATTGTTTGAACTAAATTTTTATGGGTAACTtaaataaagaagaaataccctacaaattaaaatgaagccagtataactgttataataaaacctaacagaggcacagtagtaattgaaaacttaaaaacaatttccctgaaga
s panTro5.chr21               8740127 256 +  33445071 GTACCGTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAACTAATTAATTTGTTGATGACACATATGCCAAAGATTTATATTAAACCAAAAA--AATTGTTTGAACTAAATTTTTATGGGTAACataaataaagaagaaataccctacaaattaaaatgaggccagtataactgttataataaaacctaacagaggcacaatagtaattgaaaacttgaaaacaatttccgtgaaga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279240 256 +  46275980 GTACCGTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAACTAATTAATTTGTTGATGACACATATGCCAAAGATTTATATTAAACCAAAAA--AATTGTTTGAACTAAATTTTTATGGGTAACataaataaagaagaaataccctacaaattaaaatgaggccagtataactgttataataaaacctaacagaggcacaatagtaattgaaaacttgaaaacaatttccgtgaaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8261815 256 -  13858734 GTACCGTGCTTCTCAGCATGATTTATAGTTTCTTATGGCTTAGGCTATCAAGCAGAGCTAACTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACCAAAAA--AGTTGTTTGAACTGAATTTTTACGGGTAACTtaaataaagaagaaataccctacaaattaaaatgaggccagtataactgttataataaaacctaacagaggcacaatggtaattgaaaacttgaaaacaatttccctgaaga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9285830 256 +  32716333 GTACCATGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGGTAACTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACCAAAAA--AATTGTTTGAACTAAATTTTTACAGGTAACTTAAATAAAGAAGAAATACCCTACAAATTAAAatgaggccagtataactgttataataaaacctaacagaggcacaatagtaattgaaaacttgagaacaattaccctgaaga
i nomLeu3.chr25             C 0 I 311
s rheMac8.chr3              160699583 255 - 185818997 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACC-AAAA--AATTGTTTGAACTaaatttttacagataacttaaataaagaagaaataccctacaaattaaaatgaggccagcataactgttataataatacctaacagaggcacaatagtaattgaaaacttgagaacaattttcctaaaga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334276 255 - 192294377 GTACCTTGCTTCTCAGCATAATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACC-AAAA--AATTGTTTGAACTaaatttttacagataacttaaataaagaagaaataccctacaaattaaaatgaggccagcataactgttataataatccctaacagaggcacaatagtaattgaaaacttgagaacaattttcctaaaga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970367 255 -  30496662 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACC-AAAA--AATTGTTTGAACTaaatttttacagataacttaaataaagaagaaataccctacaaattaaaatgaggccagcataactgttataataatacctaacagaggcacaatagtaattgaaaacttgagaacaattttcctaaaga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482682 255 +  21915920 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACC-AAAA--AATTGTTTCAACTaaatttttacagataacttaaataaagaagaaataccctacaaattaaaatgaggccagcataactgttataataatacctaacagaggcacaatagtaattgaaaacttgagaacaattttcctgaaga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983732 249 -  90373283 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACG-AAAA--AATTGTTTGAACTaaatttttacaga-----taaataaagaagaaataccctacaaattaaagtga-gccagcataactgttataataatacctaacagaggcacaatagtaattgaaaacttgagaacaattttcctgaaga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3488005 255 +   7543664 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTTGGTGATGACACATATGCCAAAGATTTATATTAAACC-AAAA--AATTGTTTGAACTaaatttttacagataacttaaataaagaagaaataccctacaaattaaaacgaggccagcataactgttataataatacctaacagaggcacaatagtaattgaaaacttgagaacaattttcctgaaga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259239 255 -  13750039 TTACCTTGCTTCTCAGCATGATTTATAGCTTCTCATGGCTTAGGCTATCAAGCAGAGCTAAGTAATTAATTT-GTGATGACACATATGCCAAAGATTTATATTAAACCAAAAA--AATTGTTTGAACTaaatttttacagataaattaaataaagaagaaataccctacaaattaaaatgaggccagtacaaccgttataataatacctaacagaggcacaatagtaattgaaaacttgagaacaattttcctgaagg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518132 258 +  50472720 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCATGGCTGAGGCTATCAAGCAGAGCTAAGTGATTAATTTGGTGATGACACTTATACCAAAGATTTATATTAAACTAAAAAGGAATTGTTTGAGCcaaatttttactgataatttaaataaagaggaaataccctacaaattaaaatgatgccagtataactgttataataaaacctaatagaggcacaatagtaattgaaaacttgagacaaatttccctgatgt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699212 254 +  13128814 GGACCTTGCTTCTCAGCATGATTTATAGTATCTCATGGCTGAGGCTATCAAGCAGAGCTAAGTGATTAATTTGGTGATGACACATATACCACAGATTTATATTAAACTAAAAAGGAATTGTTTGAGCCAAATTTTCACTAATAAGT----Taaagaggaaataccctacaaattaaaatgatgtcagtataactgttataataaaacctaatagagacacaatagtaattgaaaacttgaggcaaatttccctgatgt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13942929 258 -  14377064 GTACCTTGCTTCTCAGCATGATTTATAGTTTCTCGTGGCTAAGGCTATCAAGCAGAGCTAAGTGATTAATTTGGTGATGACATATATACCAAAGATTTATATTAAACTAAAAAGGAATTGTTTGAGCcaaatttttactgataagttaaataaagaggaaataccctacaaattaaaatgatgccagtataactgttataataaaacctaatagagacacaggagtaattgaaaacttgagacaaatttccctgatgt
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23718300 532 +  47401472 I
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427   0 +  39895921 C
e aotNan1.NW_018487195v1      9167346   0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=113389.000000
s hg38.chr21_GL383579v2_alt    121534 17 +    201197 ccataaataaaaatatt
s panTro5.chr21               8740383 17 +  33445071 ccataaataaaaatatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279496 17 +  46275980 ccataaataaaaatatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262071 17 -  13858734 ccataaataaaaatatt
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160699838 16 - 185818997 ccataaat-aaaatatt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334531 16 - 192294377 ccataaat-aaaatatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970622 16 -  30496662 ccataaat-aaaatatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482937 16 +  21915920 ccataaat-aaaatatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983981 16 -  90373283 ccataaat-aaaatatt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3488260 16 +   7543664 ccataaat-aaaatatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259494 16 -  13750039 ccataaat-aaaatatt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518390 17 +  50472720 ccataaataaaaatatt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699466 17 +  13128814 ccataaataaaaatact
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943187 17 -  14377064 ccataaataaaaatatt
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23718300 532 +  47401472 I
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I
e nomLeu3.chr25               9286086 311 +  32716333 I

a score=426672.000000
s hg38.chr21_GL383579v2_alt    121551 64 +    201197 ttata-taaaacgttagcaaatcaagtagatataagtatgtgtgtgtgtgtg-aaaatacaaacaa
s panTro5.chr21               8740400 64 +  33445071 ttata-taaaacattagcaaatcaagtagatataagtatgtgtgtgtgtgtg-aaaatacaaacaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279513 64 +  46275980 ttata-taaaacattagcaaatcaagtagatataagtatgtgtgtgtgtgtg-aaaatacaaacaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262088 62 -  13858734 ttata-taaaacattagcaaatcaagtagatataagta--tgtgtgtgtgtg-aaaatacaaacaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286397 56 +  32716333 TTATATTAAAACAT----------AGCAAATATAAGTATGTGTGTGTGTGTGAAAAATACAAACAA
i nomLeu3.chr25             I 311 C 0
s rheMac8.chr3              160699854 64 - 185818997 ttcta-taaaacattagcaaatcaagtcaatataagtatgtgtgtgtgtttg-aaaatacaaacaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334547 64 - 192294377 ttata-taaaacattagcaaatcaagtcaatataagtatgtgtgtgtgtttg-aaaatacaaacaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970638 64 -  30496662 ttata-taaaacattagcaaatcaagtcaatataagtatgtgtgtgtgtttg-aaaatacaaacaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13482953 64 +  21915920 ttata-taaaactttagcaaatcaagtcaatataagtatgtgtgtgtgtttg-aaaatacaaacaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19983997 64 -  90373283 ttata-taaaacattagcaaatcaagtcaatataagtatgtgtgtgcgtttg-aaaatacaaacaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3488276 64 +   7543664 ttata-taaaacattagcaaatcaagtcaatataagtatgtgtgtgtgtttg-aaaatacaaacaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259510 64 -  13750039 ttata-taaaacattagcaaatcaagtcaatatatgtatgtatgtgtgtttg-aaaatacaaacaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518407 50 +  50472720 -------------ttagcaaatcaagtcaatataag--agtgcatgtctgtg-aaaatacaaacaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699483 50 +  13128814 -------------ttagcaaatcaagtcaatataag--agtgtgtgtttgtg-aaaatacaaacaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943204 50 -  14377064 -------------ttagcaaatcaagtcaatatagg--agtgtgcgtttgtg-aaaatacaaacaa
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23718300 532 +  47401472 I
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427  0 +  39895921 C
e aotNan1.NW_018487195v1      9167346  0 -   9889416 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=21840.000000
s hg38.chr21_GL383579v2_alt    121615 2 +    201197 aa
s panTro5.chr21               8740464 2 +  33445071 aa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279577 2 +  46275980 aa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262150 2 -  13858734 aa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286453 2 +  32716333 AA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699918 2 - 185818997 aa
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167334611 2 - 192294377 aa
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4970702 2 -  30496662 aa
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13483017 2 +  21915920 aa
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19984061 2 -  90373283 aa
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3488340 2 +   7543664 aa
i manLeu1.NW_012103476v1    C 0 I 1287
s colAng1.NW_012120598v1      5259574 2 -  13750039 aa
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26518457 2 +  50472720 aa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699533 2 +  13128814 aa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943254 2 -  14377064 aa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167346 2 -   9889416 AA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23718300 532 +  47401472 I
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427 0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=1743233.000000
s hg38.chr21_GL383579v2_alt    121617 188 +    201197 aagttagatttattacaggaatgtgaggttgatttaatattagaaatatcgattaatttaccacattatttctgcaaagagaaacatttgatcgtctcaattgaaatggaaaTAATAATAATATATGAAACTTTTAAGCTACGTTAATAGTAGTTTAATTCATTTGGATTGATTGTTCTGCTGAAGG-A
s panTro5.chr21               8740466 188 +  33445071 aagttagatttattacaggaatgtgaggttgatttaatattagaaatatcgattaatttaccacattatttctgcaaagagaaacatttgatcgtctcaattgaaatggaaaTAATAATAATATATGAAACTTTTAAGCTACGTTAATAGTAGTTTAATTCATTTGGATTGATTTTTCCGCTGAAGG-A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279579 188 +  46275980 aagttagatttattacaggaatgtgaggttgatttaatattagaaatatcgattaatttaccacattatttctgcaaagagaaacatttgatcgtctcaattgaaatggaaaTAATAATAATATATGAAACTTTTAAGCTACGTTAATAGTAGTTTAATTCATTTGGATTGATTGTTCCGCTGAAGG-A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262152 188 -  13858734 aagttagatttattataagaatgtgaggttgatttaatattagaaatatcgattaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaattgaaatggaaaTAATAATAATATATGAAAATTTTAAGCTACGTTAATAGTAGTTTAATTCATTTGGATTGATTGTTCTGCTGAAGG-A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286455 185 +  32716333 AAGTTAGATT--ATAcaagaatgtgaggttga-ttaatattagaaatactgattaatttaccacattatttctgcaaagagaaaaatttgatcatctcaattgacatggaaaTAATAATAATATATTAAAGTTTTAAGCTATGTTAATAGTAGTCTAATACATTTGGATTGATTATCCTGCTGGAGG-A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160699921 188 - 185818997 aagttagatttattacaagaatatgaggttgatttaatattagaaatattgatcaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaattgacatggaaaTAATAATAACATATGAAAGTTTTAAGCTATGTTAATAGTAGTCTAATTCATTTGGATTGAGTGTTCTGCCGAAGG-A
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167334614 188 - 192294377 aagttagatttattacaagaatatgaggttgatttaatattagaaatattgatcaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaattgacatggaaaTAATAATAACATATGAAAGTTTTAAGCTATGTTAATAGTAGTCTAATTCATTTGGATTGAGTGTTCTGCCGAAGG-A
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      4970705 188 -  30496662 aagttagatttattacaagaatatgaggttgatttaatattagaaatattgatcaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaattgacatggaaaTAATAATAACATATGAAAGTTTTAAGCTATGTTAATAGTAGTCTAATTCATTTGGATTGAGTGTTCTGCCGAAGG-A
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13483020 188 +  21915920 aagttagatttattacaagaatgtgaggttgatttaatattagaaatattgatcaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaatcgacatggaaaTAATAATAATATATGAAAGTTTTAAGCTATGTTAATAGTAGTCTAATTCATTTGGATTGAGTGTTCTGCTGAAGG-A
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               19984064 188 -  90373283 aagttagatttattacaagaatgtgaggttgatttaatattagaaatattaatcaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaatggacatggaaaTAATAATAATATATGAAAGCTTTAAGCTATGTTAATAGTAGTCTAATTCATTTGGATTGAGTGTTCTGCTGAAGG-A
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3489629 188 +   7543664 aagttagatttattacaagaatatgaggttgatttaatattagaaatattgatcaatttaccacattatttctacaaagagaaaaatttgatcgtctcaatcgacatggaaaTAATAATAATATATGAAAGTTTTAAGCTATGTTAATAGTAGTCTAATTCATTTGGATGGAGTGTTCTGCTGAAGG-A
i manLeu1.NW_012103476v1    I 1287 C 0
s colAng1.NW_012120598v1      5259577 185 -  13750039 aagttagatttattacaagaatgtgaggttgatttaataatagaaatattgatcaatttaccacattatttctgcaaagagaaaaatttgatcgtctcaatcaacatggaaaTAATAATAATTTATGAAAGTTTTAAGCTATGTTAA---TAGTCTAATTCATTTGGATTGAGTGTTCTGAAGAAGG-A
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26518459 177 +  50472720 aaattagatttattacaagaatgtgaggttgatttaatattagaaatatggacta----accacattatttctgcaaagagaaaaatttgatcatctcaattgacatggaaaTAAT---AA-ACATGAAAGTTTTAAACTATGTTAATGGTAGTATAATTGATTTGGATGGA----TCTGCTGAAGATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699535 181 +  13128814 aagttagatttattacaagaatgtgaggttgatttaatattagaaatatgaactaatttaccacattatttctgcaaagagaaaaatttgatcatctcaattgacatggaaaTAATAACAA-ATATGAAAGTTTTAAGCTATGTTAATGGTA--ATAATTGATTTGGATGGA----TCTGCTGAAGA-A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943256 183 -  14377064 aagttagatttattacaagaatgtgaggttgatttaatattagaaatatggactaatttaccacattatttctgcaaagagaaaaatttgatcatctcaattgacatggaaaTAATAATAA-ATATGAAAGTTTTAAGCTATGTTAATGGTAGTATAATTGATTTGGATGGA----TCTGCTGAAGA-A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167348 179 -   9889416 aagttagatttattacaagaatgtgaggttgatttaatattagaaatatggactaatttaccacattatttctgcaaagagaaaaatttgatcatctcaattgacatggaaaTAAT---AA-ATATGAAAGTTTTAAGCTATGTTAATGGTAGTATAATTGATTTGGAT-GA----TCTGCTGAAGA-A
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23718300 532 +  47401472 I
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427   0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=2174.000000
s hg38.chr21_GL383579v2_alt    121805 1 +    201197 A
s panTro5.chr21               8740654 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279767 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262340 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286640 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700109 1 - 185818997 C
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334802 1 - 192294377 C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970893 1 -  30496662 C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483208 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984252 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3489817 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259762 1 -  13750039 G
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518636 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699716 1 +  13128814 A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943439 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167527 1 -   9889416 A
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23718832 1 +  47401472 A
i micMur3.chr31             I 532 C 0
e dasNov3.JH578070            2412748 258 +   3081153 I
e canFam3.chr31              18062427 0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=1363170.000000
s hg38.chr21_GL383579v2_alt    121806 123 +    201197 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGAGGAATAATCTAGAAAAACTGAGGAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCGTGATGTA-TTTGGTGATCTGG
s panTro5.chr21               8740655 123 +  33445071 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGAGGAATAATCTAGAAAAACTGAGGAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCGTGATGTA-TTTGGTGATCTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279768 123 +  46275980 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGAGGAATAATCTAGAAAAACTGAGGAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCGTGATGTA-TTTGGTGATCTGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262341 123 -  13858734 AAACAGAAACATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGAGGAATAATCTAGAAAAACTGAGGAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCGTGATGTA-TTTGGTGATCTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286641 124 +  32716333 AAGCAGAAGGATCA-----------AAGCAATATTTTAAAAAAT---CGAAGTGAGGAATAATCTAGAAAAACAGAGAAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCATGATGTATTTTGGTGATCTGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700110 123 - 185818997 AAACAGAGAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAAAAACAGAGAAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCATGATGTA-TTTGGTGATCTGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334803 123 - 192294377 AAACAGAGAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAAAAACAGAGAAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCATGATGTA-TTTGGTGATCTGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4970894 123 -  30496662 AAACAGAGAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAAAAACAGAGAAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCATGATGTA-TTTGGTGATCTGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483209 123 +  21915920 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAAAAACAGAGAAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCATGATGTA-TTTGGTGATCTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984253 121 -  90373283 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAAAAACAGAGAAAACAACAGAAGGCAGGTGA--CTGAATTGTTTCCACCATGATGTA-TTTGGTGATCTGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3489818 123 +   7543664 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAATAACAGAGAAAACAACAGAAGGCAGGTGACTCTGAATTGTTTCCACCATGATGTA-TTTGGTGATCTGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259763 123 -  13750039 AAACAGAAAGATCA-----------AAACAATATTTTAAAAAAT---CAAAGTGGGGAATAATCTAGAAAGACAGAGAAAACAGCAGAAGGCAGGTGACTCTGAATTGTTTCCACCGTGATGTA-GTTGGTGATCTGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518637 133 +  50472720 AAACAGAAAGATTGaacaatattttaaacaatattttaaaAAAT---CAAAGTGAAGAATAATCTAGAAAAATTCAGAAAACAACAGAAAGCAGGTAACTCTGAATTGTTTCCTCC-TGATGTA-TTTGATGATCTGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699717 134 +  13128814 AAACAGAAAGATCGaacaatattttaaacaatattttaaaAAAT---CAAAGTGAAGAATAATCTAGAAAAATTCAGAAAACAACAGAAAGCAGGTGACTCTGAATTGTTTCCTCCATGATGTA-TTTGATGATCTGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943440 130 -  14377064 AAAC----AGATCGAACAATATTTTAAACAATATTTCAAAAAAT---CAAAGTGAAGAATAATCTAGAAAAATTCAGAAAACAAAAGAAAGCAGGTGAATCTGAATTGTTTCCTCCATGATGTA-TTTGATGATCTGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167528 133 -   9889416 AAACAGAAAGATCGAACAATATTTTAAACAATATTT-AAAAAAT---CAAAGTGAAGAATAATCTAGAAAAATTCAGAAAACAACAGAGAGCAGGTGACTCTGAATTGTTTCCTCCATGATGTA-TTTGATGATCTGG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23718833 124 +  47401472 AAACAAAAGGATAA-----------AAACCATATTTTTAAAAAT--CCAAAATGAAGAATAATCAAGAAAAATTGAGAAAAAAACAGAAAACTTGTAATTCTGATTTGTTTTGACTGTGATGTA-TTTGGTGATCTGG
i micMur3.chr31             C 0 I 40
s dasNov3.JH578070            2413006 111 +   3081153 AAACAGGAGGGTCA-----------AAACTATATTTTTAAAACCATCCATAGTAAGGAATAATC-AAATAAACAGGAAAAA--------------TGATTCTGAACACTTTTTACTGTAATGTA-TTTGCTGCTCTGG
i dasNov3.JH578070          I 258 C 0
e canFam3.chr31              18062427   0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=466737.000000
s hg38.chr21_GL383579v2_alt    121929 47 +    201197 TGTAGGTATCTGAGAGACTGAACTAAGCTGTAATGGACTAATTTGGA
s panTro5.chr21               8740778 47 +  33445071 TGTAGGTATCTGAGAGACTGAACTAAGATGTAATGGACTAATTTGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279891 47 +  46275980 TGTAGGTATCTGAGAGACTGAACTAAGATGTAATGGACTAATTTGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262464 47 -  13858734 TGTAGGTATCTGAGAGACTGAACTAAGATGTAATGGACTAATTTGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286765 47 +  32716333 TGTAGGTATCTGAGAGACTGAACTAACATGTAATGGACTAATTTGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700233 47 - 185818997 TGTAGCTATCTGAGACACTGAACTAAGATGTAATGGACTAATTTGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334926 47 - 192294377 TGTAGCTATCTGAGACACTGAACTAAGATGTAATGGACTAATTTGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971017 47 -  30496662 TGTAGCTATCTGAGACACTGAACTAAGATGTAATGGACTAATTTGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483332 47 +  21915920 TGTAGCTATCTGAGACACTGAACTAAGATGTAATGGACTAATTTGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984374 47 -  90373283 TGTAGCTATCTGAGACACTGAACTAAGATGTAATGGACTAATTAGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3489941 47 +   7543664 TGTAGCTATCTGAGACACTGAACTAAGATGTAATGGACTAATTTGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259886 47 -  13750039 TGCAGCTATCTGAGACATTGAACTAAGATGTAATGGACTAATTTGGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518770 47 +  50472720 TGTAGAGACCTGAGAGACTGAACTTAGATGTAATGAACTAATTCAGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699851 47 +  13128814 TGTAGACACCTGAGAGATTGAACTTAGATGTAATGAACTAATTCAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943570 47 -  14377064 TGTAGAGACCTGAGAGATTGAACTTAGATGTAATGAACTAATTCAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167661 47 -   9889416 TGTAGAGACCTGAGAGTTTGAACTTAGATGTAATGAACTAATTCAGA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2413117 47 +   3081153 AGTAGATATTCAAGAGTTTGAACTCAAATTTAATGAAGCAATCCAGA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23718957 40 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=1376540.000000
s hg38.chr21_GL383579v2_alt    121976 120 +    201197 GATGGTAAAACAGGAACTGAAATTCGGTGTCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCTTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTTAAATAATTTTATT-----CTTATAAA
s panTro5.chr21               8740825 120 +  33445071 GATAGTAAAACAGGAACTGAAATTCGGTGTCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTTAAATAATTTTGTT-----CTTATAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22279938 120 +  46275980 GATAGTAAAACAGGAACTGAAATTCGGTGTCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTTAAATAATTTTGTT-----CTTATAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262511 120 -  13858734 GATAGTAAAACAGGAACTGAAATTCGGTGTCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTGAATCTCTTTAAATAATTTTGTT-----CTTATAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286812 120 +  32716333 GATAGTAAAACAGGAACCAAAATTCAATGTCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTTAAATAATTTTGTT-----CTTATAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700280 120 - 185818997 GATAGTAAAACAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGGTAGACCCACAT----GAGCTAAATCTCTTTAAACAATTTTGTT-----CTTATAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167334973 120 - 192294377 GATAGTAAAACAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGGTAGACCCACAT----GAGCTAAATCTCTTTAAACAATTTTGTT-----CTTATAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971064 120 -  30496662 GATAGTAAAACAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGGTAGACCCACAT----GAGCTAAATCTCTTTAAACAATTTTGTT-----CTTATAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483379 120 +  21915920 GATAGTAAAACAGGAACTGAAATTCAGTGCCAACCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTTAAACAATTTTGTT-----CTTATTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984421 120 -  90373283 GATAGTAAAGCAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAACCCTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTTAAACAATTTTGTT-----CTTATAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3489988 120 +   7543664 GATAATAAAACAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAATCCTGGCTAGACATCTCTCCTATGGGCTAGACCCACAT----GAGCTGAATCTCTTTAAACAATTTTGTT-----CTTATAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5259933 120 -  13750039 GATAGTAAAACAGGAACTGAAATTCAGTGCCAGCCATACTGGGAAACCTTGGCTAATCATCTCTCCTCTGGGCTAGACCCACAT----GAGCTAAATCTCTTCAAACAATTTTGTT-----CTCATAAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518817 120 +  50472720 GATACTAAAACAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAAACCTGGCAAATCATCTCTCCTCTGTGCTAGACCCACAT----GAGCGAAACCTCTTTAAATAATTTTGTT-----CGTATAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8699898 124 +  13128814 GATACTAAAACAGGAACTGAAATTCAGTGCCAGCCATACTTGGAAACCCTGGCTAATCATCTGTCCTCTGTGCTAGACTCACATTAAAAAGCTAAACCTCTTTAAATAATTTTGTT-----CTTATAAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943617 124 -  14377064 GATACTAACACAGGAACTGAAATTCAGTGCCAGCCATACGTGGAAACCCTGGCTAATCATCTCTCCTCTGTGCTAGAGCCACATTAAAGAGCTAAACCTCTTTAAATAATTTTGTT-----CTTATAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167708 120 -   9889416 GATACTAAAACAGGAACTGAAATTCAGTGCCAGCCGTACTTGGAAACCCTGGCTAATCATCTCTCCTCTGTGCTAGACCCACAT----GAACTAAACCTCTTTAAATAATTTTATT-----CTTATAAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23718997 120 +  47401472 GATGGTGAAACAAGAGTTGAAATTCAATGCCAGCCACGCTTGGAAACCCTGGCCAATTATCTCTCCTCTGAGCTGGAGCCACAG----GAGCTGAACCACTTTAAATACTTTTGTT-----CTTGTAAA
i micMur3.chr31             I 40 I 45
s dasNov3.JH578070            2413164 113 +   3081153 AACAGGGAAACCGTTGTTGAAATCCAATGCTGGCCACATGTGTAGATCCTAGTAAACCACC------------TGGGGCCATAA----GGGGTAAACCATCTTAACTGTTTTTTTTTTTTCCTCATAAA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18062427   0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=260295.000000
s hg38.chr21_GL383579v2_alt    122096 27 +    201197 CGTA---AATAAAGAGCTCCACATGCAGCG
s panTro5.chr21               8740945 27 +  33445071 TGTA---AATAAAGAGCTCCACATGCAGCG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280058 27 +  46275980 TGTA---AATAAAGAGCTCCACATGCAGCG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262631 27 -  13858734 TGTA---AATAAAGAGCTCCACATGCAGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286932 27 +  32716333 TGTA---AATAAAGAGCTCCACATGCAGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700400 27 - 185818997 TGTA---AATAAAGAGCTCCATATGCAGCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335093 27 - 192294377 TGTA---AATAAAGAGCTCCATATGCAGCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971184 27 -  30496662 TGTA---AATAAAGAGCTCCATATGCAGCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483499 27 +  21915920 TGTA---AATAAAGAGCTCCATATGCAGCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984541 27 -  90373283 TGTA---AATAAAGAGCTCCACATGCAGCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490108 27 +   7543664 TGTA---AATAAAGAGCTCCACATGCAGCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260053 27 -  13750039 TGTA---AATAAAGAGCTCCACATGCAGCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518937 27 +  50472720 TGTA---ATTACAGAGCTCCACATGCAGGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8700022 27 +  13128814 TGTA---ATTACAGAGCTCCACATGCAGGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943741 27 -  14377064 TGTA---ATTACAGAGCTCCACATGCTGGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167828 27 -   9889416 TGTA---ATTACAGAGCTCCACATGCAGGG
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2413277 30 +   3081153 TGCAGGGGATACAGAGCTAAGCATTTGATG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719117 45 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=878858.000000
s hg38.chr21_GL383579v2_alt    122123 79 +    201197 AACTTGAAGAGCTTAATGAATTAAGGTTGAATTCCAGTGATTGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
s panTro5.chr21               8740972 79 +  33445071 AACTTGAAGAGCTTAATGAATTAAGGTTGAATTCCAGTGATTGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280085 79 +  46275980 AACTTGAAGAGCTTAATGAATTAAGGTTGAATTCCAGTGATTGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262658 79 -  13858734 AACTTGAAGAGCTTAATGAATTAAGGTTGAATTCCAGTGATTGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9286959 79 +  32716333 AACTTGAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATTGCCAGCTATTCAGTCCCTTGATGAAA-CCACCCAGCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700427 79 - 185818997 AACTTAAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATCGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335120 79 - 192294377 AACTTAAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATCGCTAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971211 79 -  30496662 AACTTAAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATCGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483526 79 +  21915920 AACTTGAAGAGGTGAATGAATTGAGGTTGAATTCCAGTGATCGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984568 79 -  90373283 AACTTGAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATCGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490135 79 +   7543664 AACTTGAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATCGCCAGCCATTCAGTCCC-TGATGAAACCCACCCAACTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260080 79 -  13750039 AACTTGAAGAGCTGAATGAATTGAGGTTGAATTCCAGTGATCACCAGCCATTCAGTCCC-TGATGAAACCCACCCAGCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26518964 78 +  50472720 AACCTGAGGAGCTGAATGAATTGAAGTTGGATTCCAGTGATTGCCAGCCATTCAGTTTC-TGATGAAACCCA-GGAGCTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8700049 78 +  13128814 AAGCTGAGGAGCTGAATGAGTTGAAGTTGGATTCCAGTGATTGCTAGCCATTCAGTTTC-TGATGAAACCCA-CCAGCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943768 78 -  14377064 AAGCTGAGGAGCTGAATGAATTGAAGTTGGATTCCAGTGATCGCCAGCCATTCAGTTTC-TGATGGAACCTA-CCAGCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167855 78 -   9889416 AACCCGAGGAGCTGAATGAATTGAAGTTGGATTCCAGTGATCGCCAGCCATTCAGTTTC-TGATGAAACCCA-ACAGCTC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23719162 79 +  47401472 AACTTGAAGCGGTGAATGAACTGAGGTTGGATTCCAGCAACTGCCAGACATTTAAACCC-TGATGAAACACACCCAGCTC
i micMur3.chr31             I 45 I 95
s dasNov3.JH578070            2413307 76 +   3081153 AATTTGAGGAGCTGAATGAACTAATGTTGGATTCCAGAAATTGCCAAGGATTGAGATTT-TTCTTAATCTGGGCCAG---
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18062427  0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=511648.000000
s hg38.chr21_GL383579v2_alt    122202 49 +    201197 CAGATGCAGAACACAA-----CAGCACTAGACATAATAGTGTTGACTTTTTCTC
s panTro5.chr21               8741051 49 +  33445071 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280164 49 +  46275980 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262737 49 -  13858734 CAGATGCAGAACACAA-----CAGCACGAGAAATAATAGTGTTGACTTTTTCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287038 49 +  32716333 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700506 49 - 185818997 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335199 49 - 192294377 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971290 49 -  30496662 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483605 49 +  21915920 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984647 49 -  90373283 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490214 49 +   7543664 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260159 49 -  13750039 CAGATGCAGAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26519042 48 +  50472720 CAGATGT-GAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8700127 48 +  13128814 CAGATGT-GAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943846 48 -  14377064 CAGATGT-GAACACAA-----CAGCACCAGAAATAACAGTGTTGACTTTTTCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167933 48 -   9889416 CAGGTGT-GAACACAA-----CAGCACTAGAAATAATAGTGTTGACTTTTTCTC
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2413383 42 +   3081153 --------GATCACAAAGCCTCTGCACCA-AAATGATAATGTTGCTTTCCG---
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719241 95 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C
e otoGar3.GL873528           24883715 309 -  38779656 I

a score=500137.000000
s hg38.chr21_GL383579v2_alt    122251 45 +    201197 AGCACGTCCTCTAGAGCACCTAGAAA-CAATGGCCCTTGATTCTGG
s panTro5.chr21               8741100 45 +  33445071 AGCACGTCCTCTAGAGCACCTAGAAA-CAATGGCCCTTGATTCTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280213 45 +  46275980 AGCACGTCCTCTAGAGCACCTAGAAA-CAATGGCCCTTGATTCTGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262786 45 -  13858734 AGCACGTCCTCTAGAGCACCTAGAAA-CAATGGCCCTTGATTCTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287087 45 +  32716333 AGCACATCCTCTAGAGCACCTAGAAA-CAATGACCCTtgattctgg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700555 45 - 185818997 AGCACGTCTTCTATAGCACCTGGAAA-CAATGACCCTTGATTCTGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335248 45 - 192294377 AGCACGTCTTCTATAGCAGCTGGAAA-CAATGACCCTTGATTCTGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971339 45 -  30496662 AGCACGTCTTCTATAGCACCTGGAAA-CAATGACCCTTGATTCTGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483654 45 +  21915920 AGCACGTCTTCTATAGCACCTGGAAA-CAATGACCCTTGATTCTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984696 45 -  90373283 AGCACATCTTCTATAGCGCCTGGAAA-CAATGACCCTTGATTCTGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490263 45 +   7543664 AGCACATCTTCTATAGCACCTGGAAA-CAATGACCCTTGATTCTGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260208 44 -  13750039 AGCACGTCCTCTATAGCACCTAGAAA-CAATGAACC-TGATTCTGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26519090 45 +  50472720 AGCATGTGCTCTAGAACACCTGGAAA-CAATGACCCTTGATTCTAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8700175 45 +  13128814 AGCATGTCCTCTAGAACACCTGGAAA-CAATGACCCTTGATTCTAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943894 45 -  14377064 AGCATGTCTTCTAGAACACCTGGAAA-CAATGACCCTTGATTCTAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9167981 45 -   9889416 AGCATGTCCTCTAGAACACCTGGAAA-CAATGACCCTTGATTCTAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24884024 45 -  38779656 AGCAGGTCTTTTAGGGCACCTGGAAA-CAATTAACTTTGATTCTAG
i otoGar3.GL873528          I 309 C 0
s dasNov3.JH578070            2413425 46 +   3081153 TACAGGTCACCCTGAGGGCTTGGAAAGCAATGAATCTTATTTCTAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719241 95 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C

a score=1550065.000000
s hg38.chr21_GL383579v2_alt    122296 134 +    201197 ACTGCTAACATCCACAGTGTCTAGTAGGAGAAAAGGAAAA---TCTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACATAAGTAATTATTTTAATACAACATGGTGAGCATAATCTAAGACAAACA-G
s panTro5.chr21               8741145 134 +  33445071 ACTGCTAACATCCACAGTGTCTAGTAGGAGAAAAGGAAAA---TCTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACGTAAGTAATTATTTTAATACAACATGGTGAGCATAATCTAAGACAAACA-G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280258 134 +  46275980 ACTGCTAACATCCACAGTGTCTAGTAGGAGAAAAGGAAAA---TCTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACGTAAGTAATTATTTTAATACAACATGGTGAGCATAATCTAAGACAAACA-G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262831 134 -  13858734 ACTGCTAACATCCACAGTGTCTAGTAGGAGAAAAGGAAAA---TCTTTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACGTAAGTAATTATTTTAATACAACATGGTGAGCATAATCTAAGACAAACA-G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287132 134 +  32716333 actgctaacatccacagcgtctagtaggaggaacggaaaa---tctgtggagtaagaaaatgacagcttagctatcaaattactt-acataagtaattattttagtgcaacatggtgagcataatctaagacaaaca-g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700600 135 - 185818997 ACTGCTAACATCCACAGCGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACATAAGTAATTATTTTCGTACAACATGCTGAACATAATCTAAGACAAACAGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335293 135 - 192294377 ACTGCTAACATCCACAGCGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACATAAGTAATTATTTTCGTACAACATGCTGAACATAATCTAAGACAAACAGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971384 135 -  30496662 ACTGCTAACATCCACAGCGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACGTAAGTAATTATTTTCGTACAACATGCTGAACATAATCTAAGACAAACAGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483699 135 +  21915920 ACTGCTAACATCCACAGCGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACATAAGTAATTATTTTCGTACAACATGCTGAACATAATCTAAGACAAACAGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984741 135 -  90373283 ACTGCTAACATCCACAGCGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAAAATGGCATCTTAGGTATCAAATTACTT-ACATAAGTAATTATTTTCATACAACATGCTGAACATAATCTAAGACAAACAGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490308 135 +   7543664 ACTGCTAACATCCACAGCGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAAAATGACATCTTAGGTATCAAATTACTT-ACATAAGTAATTATTTTCGTACAACATGCTGAACATAATCTAAGACAAACAGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260252 135 -  13750039 ACTGCTAACATCCACAGTGTCTAGTAGGAGAAAAGGAAAA---TGTGTGGAGTAAGAATATGACATCTTAGGTATCAAATTACTT-ATGTAAGTAATTATTTTTGTACAACATGCTGAACATAATCTAAGACAAACAGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26519135 131 +  50472720 ACTGTTAACATCCACAGCATCTAGTTGGAGAAAAGGAAAA---TCTGTGGAGTAAGATAATGATATCTTAGATAACACATTGCTT-----AAGTAATTATTCTAGTACAACATGCTGAGAATAATCTAAGGCAAACAGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8700220 135 +  13128814 ACTGTTAACATCCACAGCATCTAGTTGGAGAAAAGGAAAA---TCTGTGGAGTAAGATAATGATATCTTAGGTATCAAATTACTT-ATGGAAGTAATTATTCTAGTACAACATGCTGAGAATGATCTAAGACAAACAGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13943939 132 -  14377064 ACTTTTAACATCCACAGCACCTAGTTGGAGAAAAGGAAAA---TCTGTGGAGTAAGATA---ATATCTTAGGTATCAAATTACTT-ACTTAAGTAATTATTCTAGTACAACATGCTGAGAATAATCTAAGACAAACAGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9168026 136 -   9889416 ACTGTTAACATCCACAGCATCTAGTTGGAGAAAAGGAAAA---TCTGTGGAATAAGATAATGATATCTTCGGTATCAAATTACTTAACATAAGTAATTATTCTAGTACAACATGCTGAGAATAATCTAAGACAAACAGG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23719336 134 +  47401472 ACTGCTAATATCCACAGAGTCTACTAAGAGAAAATGAAAA---TCTCTGGAGTAAGATAATGACATCTTTGGTATCAAATTATTT-GTGTAAATGATTATTTTAGCATGACATACTGAGCATACTCAAAGACAAACAG-
i micMur3.chr31             I 95 I 1003
s otoGar3.GL873528           24884069 116 -  38779656 CTTATTAATATACACAATGTCTAGTAGAAGAAAATAAAAA---TCTCTGGAATAAGATAATGATGTCTTAGGTATCGAATTATTT-GTG----TGATTATCTTAGCACCGCATACTGAGCATAA---------------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2413471 125 +   3081153 ACTAATATCTTTCA-AGTGCCAAGTTGGAGAAAATGGAAATCCTCTATGAAATATGAAA---ACATCTTAGGAATCAAATCATTT-AAGTAATTTATTATTTCAATAAAATGCCCTA---------TGAGCAAAGCAGG
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18062427   0 +  39895921 C

a score=814539.000000
s hg38.chr21_GL383579v2_alt    122430 79 +    201197 CAAATAAGAAGATAAAACTA--TGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
s panTro5.chr21               8741279 79 +  33445071 CAAATAAGAAGATAAAACTA--TGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280392 79 +  46275980 CAAATAAGAAGATAGAACTA--TGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8262965 79 -  13858734 CAAATAAGAAGATAAAACTA--CGTAAGTCCTAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287266 79 +  32716333 caaataagaagataaaacta--cgtaagtcataatgagcagaacaagttaaagacagaaatataccctcaaa-attttagtt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700735 79 - 185818997 CAAATAAGAAAATAAAACTA--CGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335428 79 - 192294377 CAAATAAGAAAATAAAACTA--CGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971519 79 -  30496662 CAAATAAGAAAATAAAACTA--CATAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483834 79 +  21915920 CAAATAAGAAAATAAAACTA--CGTAAGTCATAATGAGCAGAACAACTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984876 79 -  90373283 CAAATAAGAAAATAAAACTA--CGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490443 79 +   7543664 CAAATAAGAGAATAAAACTA--CGTAAGTCATAATGAGCAGAACAAGTTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260387 79 -  13750039 CAAATAAGAAAATAAAACTA--TGTAAGTCATAATGAGCCGAACAAATTAAAGACAGAAATATACCCTCAAA-ATTTTAGTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26519266 74 +  50472720 CAAATAAAAAGATA-----A--TGTAAGTCATAATGAGCAGAACAAGATGAAGACAGAAATATACCATCAAA-AATATAGTT
i calJac3.chr21             C 0 I 171
s saiBol1.JH378168            8700355 74 +  13128814 CAAATAAAAAGATA-----A--TGTAAGTCATAATGAGCAGAACAAGTTGAAGACAGAAATATACCATCAAA-AATGTAGTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13944071 74 -  14377064 CAAATAAAAAGATA-----A--TGTAAGTCATAATGAGCAGAACAAGTTGAAGACAGAAATATACCATCAAA-ATTGTAGTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9168162 74 -   9889416 CAAATAAAAAGATA-----A--TGTAAGTCATAATGAGTAGAACAAGTTGAAGACAGAAATATATCATCAAA-AATGTAGTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24884185 75 -  38779656 -----AAGATGATAAAAACAGTTATAAGTTTAAATGTGCAGATCTAGT--AAGACAGAAATGCACCCTAAGGCGCTGTACAT
i otoGar3.GL873528          C 0 I 1
s dasNov3.JH578070            2413596 77 +   3081153 CTCGTAAGAAGATAAAA--A--AGT-AGTCAGAATGAGCAGAAAAAGCAGAAAAGAGAGACATATCATGAAGGATTTTAATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C

a score=743439.000000
s hg38.chr21_GL383579v2_alt    122509 74 +    201197 -----AA-----AAAATTATCAGGTGCTGTCTGTATGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC-TTT--
s panTro5.chr21               8741358 74 +  33445071 -----AA-----AAAATTATCAGGTGCTGTCTGTATGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC-TTT--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280471 74 +  46275980 -----AA-----AAAATTATCAGGTGCTGTCTGTATGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC-TTT--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263044 74 -  13858734 -----AA-----AAAATTATCAGGTGCTGTCTGTATGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC-TTT--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287345 74 +  32716333 -----aa-----aaaattatcagatGCTGTCCGTACGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC-TTT--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700814 72 - 185818997 -----AA-----AAAATTATCAGATGCTGTCCATAAGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC---T--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335507 73 - 192294377 -----AA-----AAAATTATCAGATGCTGTCCATAAGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC--TT--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971598 73 -  30496662 -----AA-----AAAATTATCAGATGCTGTCCATAAGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC--TT--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483913 74 +  21915920 -----AA-----AAAATTATCAGATGCTGTCCATAAGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC-TTT--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19984955 72 -  90373283 -----AA-----AAAATTATCAGATGTTGTCCATAAGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC---T--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490522 72 +   7543664 -----AA-----AAAATTATCAGATGCTGTCCATAAGATACATTATTATAGTTTATCAGCTATTGCTTGGAAAAC---CTAAAC---T--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260466 75 -  13750039 -----AA-----AAAATTATCAGATGCTGTCCGTAAGATACATTATTATAGTTTATCAGCTATTGCTGGGAAAAC---CTAAACGTTT--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26519511 74 +  50472720 -----aa-----gaaaTTATCAGATGCTCTCTGTAAAATATATTCTTATAGTTTTTCAGCCATTGCTTGGAAAAC---CTAAAC-TTT--
i calJac3.chr21             I 171 C 0
s saiBol1.JH378168            8700429 74 +  13128814 -----AA-----GAAATTATCAGATGCTCTCTGTAAAATACATTCTTAGAGTTTTTCACCCATTTCTTGGAAAAC---CTAAAC-TTT--
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13944145 74 -  14377064 -----AA-----GAAATTATCAGATGCTCTCTGTAAAATATATTCTTATAGTTTTTCAGCCATTGCTTGGAAAAC---CTAAAC-TTT--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9168236 74 -   9889416 -----AA-----GAAATTATCAGATGCTCTCTGTAAAATATATTCTTGTAGTTTTTCAGCCATTGCTTGGAAAAC---GTAAAC-TTT--
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24884261 70 -  38779656 -----AT-----GAAATTATCAGA--CTATCTAAAAAACACATTATTATCATTTTCCAGTCATTACTTGGAAAAT---CTAACC---T--
i otoGar3.GL873528          I 1 C 0
s dasNov3.JH578070            2413673 84 +   3081153 AACGTAATTATTAGGATTACCAGGTACTGTCTATA--ACACCTTATTAGGGCTTTCAAGTCATTGCT-GGAAAACAGTCTAAGA---TGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e canFam3.chr31              18062427  0 +  39895921 C

a score=828932.000000
s hg38.chr21_GL383579v2_alt    122583 81 +    201197 TCT---CTTTTTTATCGGTACATTTGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTT-AAGA
s panTro5.chr21               8741432 81 +  33445071 TCT---CTTTTTTATCGGTACATTCGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTT-AAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280545 81 +  46275980 TCT---CTTTTTTATCGGTACATTCGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTT-AAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263118 81 -  13858734 TCT---CTTTTTTATCTGTACATTCGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTT-AAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287419 82 +  32716333 TCTC--CTTTTCTATCTCTACATTTGTTTTGGAGAGAATTTTATTTTCTCCTACTAAGTCTTGGGATAATCAACCA---------ATTT-AAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160700886 82 - 185818997 TTA---TTTTTTTACCTTCATATTTGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTTAAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335580 82 - 192294377 TTT---TTTTTTTACCTTCATATTTGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTTAAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971671 82 -  30496662 TTT---TTTTTTTACCTTCATATTTGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTTAAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13483987 82 +  21915920 TTT---TTTTTTTACCTTCATATTTGTTTTGGAGAGAATTTTATTTTCTCCTACCAAGTCTTGGGATAATCAACCA---------ATTTAAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985027 82 -  90373283 TTT---TTTTTCTACCTTCATATTTGTTATGGAGAGAATTTTATTTTCTCCTACCAAGTCTGGGGATAATCAACCA---------ATTTAAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490594 82 +   7543664 TTT---TTTTTTTACCTCCATATTTGTTTTGGAGAGAATTTTATTTTCTCCTACGAAGTCTTGGGATAATCAACCA---------ATTTAAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260541 82 -  13750039 CTC---TTTTTTTACCTCCAAATTTGTTTTGGAGATAATTTTATTTTCTCCTACCAAGCCTTGGGATAATCAACCA---------ATTTAAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26519585 84 +  50472720 TCTCTTTTTCTCAATCTCCACATTTGTTTCGGAGATAATTTTATTTTCCCCTACCAAGTGTTGGGATAATCAACCA---------ATAT-AAGA
i calJac3.chr21             C 0 I 336
s saiBol1.JH378168            8700503 84 +  13128814 TCTCTATTTTTCAATCTCCACATTTGTTTTGGAGGTAATTTTATTTTCCCCTACCAAGAGTTGGGATAatcaacca---------atac-aaga
i saiBol1.JH378168          C 0 I 8
s cebCap1.NW_016107322v1     13944219 84 -  14377064 TCTCTTTTTTTCAATCTCCACATTTGTTTTGGAGATAATTTTATTTTCCCCTACCAAGCGTTGGGATAATCAACCA---------ATAT-AAGA
i cebCap1.NW_016107322v1    C 0 I 7
s aotNan1.NW_018487195v1      9168310 80 -   9889416 TCT---TTTTTCAATCTCCACATTTGTTTTGGAGATAATTTT-TTTCTCCGAACCAAGCATTGGGATAATCAACCA---------ATTT-AAGA
i aotNan1.NW_018487195v1    C 0 I 8
s otoGar3.GL873528           24884331 79 -  38779656 TAT---TATTTTAATCTGCATAGTTGCTTTAAAAAC-ATGTTATTTTTTC-TGTTATATGTTGGAGTAATCAACCA---------TTTG-AAGC
i otoGar3.GL873528          C 0 I 23
s canFam3.chr31              18062427 81 +  39895921 TCC---ATTTTTTACCTGTACATTTGTTTTAGAGAGGATTTTATTTTCTCCAACTAAGCACTAGGGTAatcaacca---------attt-aaga
i canFam3.chr31             C 0 I 8
s dasNov3.JH578070            2413757 86 +   3081153 -------TTTTTTATCTTCATGTTTATTATATAAAGGATTTTATTTTGTTCTACTAGGCATCCAGCTAATCCACCAAAAATAAACAAAT-AAAA
i dasNov3.JH578070          C 0 I 10
e micMur3.chr31              23719470 1003 +  47401472 I

a score=1869369.000000
s hg38.chr21_GL383579v2_alt    122664 179 +    201197 AGAGCTC---AAATTTTatgaataaaagt----aaatgatacccaaatcatttataataacactgcagaaaatc-aaagac----agatacatcgtttt---aaaagtctgggttagggtaggaggaaagctagatcagctccaatgagg---taa-tattctgataa--ctgagttttcagtagaagcaG---AAAAAAAAA
s panTro5.chr21               8741513 179 +  33445071 AGAGCTC---AAATTTTatgaataaaagt----aaatgataccgaaatcatttataataacactgcagaaaatc-aaagac----agatacatcgtttt---aaaagtccgggttagggtaggaggaaagctagatcagctccaatgagg---taa-tattctgataa--ctgagttttcagtagaagcaG---AAAAAAAAA
i panTro5.chr21             C 0 I 1
s panPan2.chr21              22280626 179 +  46275980 AGAGCTC---AAATTTTatgaataaaagt----aaatgatacccaaatcatttataataacactgcagaaaatc-aaagac----agatacatcgtttt---aaaagtccgggttagggtaggaggaaagctagatcagctccaatgagg---taa-tattctgataa--ctgagttttcagtagaagcaG---AAAAAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263199 179 -  13858734 AGAGCTC---AAATTTTATGAATAAAAGT----AAATGATACCCAAATCATTTATAATAACACTGCAGAAAATC-AGAGAC----AGATACATCGTTTT---AAAAGTCCGGGTTAGGGTAGGAGGAAAGCTAGATCAGCTCTAATGAGG---TAA-TATTCTGATAA--CTGAGTTTTCAGTAGAAGCAG---AAAAAAAAA
i gorGor5.CYUI01015003v1    C 0 I 1
s nomLeu3.chr25               9287501 171 +  32716333 AGAGCTC---AAATTTTATGAA------T----AAATGATACCCAAATCATttataataacactgcagaaaatc-aaagac----agatacatcgtttt---aaaagcctgggttaggataggaagaaagctagatcagctccaatgagg---taa-tattctgataa--ct--gttttcagtagaagcaG---AAAAAAAAA
i nomLeu3.chr25             C 0 I 1
s rheMac8.chr3              160700968 180 - 185818997 AGAGCTC---AAATTTTatgaataaaaat----aaatgactcccgaataatttatagtaacactgcagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagctagatcagctcaaatgagg---taa-tattctgatga--ctgagttttcagtagaagcaG--AAAAAAAAAA
i rheMac8.chr3              C 0 I 3
s macFas5.chr3              167335662 179 - 192294377 AGAGCTC---AAATTTTatgaataaaaat----aaatgactcccgaataatttatagtaacactgcagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagctagatcagctcaaatgagg---taa-tattctgatga--ctgagttttcagtagaagcaG---AAAAAAAAA
i macFas5.chr3              C 0 I 3
s macNem1.NW_012015021v1      4971753 180 -  30496662 AGAGCTC---AAATTTTatgaataaaaat----aaatgactcccgaataatttatagtaacactgcagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagctagatcagctcaaatgagg---taa-tattctgatga--ctgagttttcagtagaagcaG--AAAAAAAAAA
i macNem1.NW_012015021v1    C 0 I 3
s cerAty1.NW_012002954v1     13484069 179 +  21915920 AGAGCTC---AAATTTTatgaataaaaat----aaatgactcccgaataatttatagtaacactgcagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagctacatcagctcaaatgagg---taa-tattctgatga--ctgagttttcagtagaagcaG---AAAAAAAAA
i cerAty1.NW_012002954v1    C 0 I 3
s chlSab2.chr2               19985109 179 -  90373283 AGAGTTC---AAATTTTatgaataaaaat----aaatgactcccaaataatttatagtaacactgcagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagctagatcagctcaagtgagg---taa-cattctgatga--ctgagttttcagtagaagcaG---AAAAAAAAA
i chlSab2.chr2              C 0 I 3
s manLeu1.NW_012103476v1      3490676 180 +   7543664 AGAGCTC---AAATTTTatgaataaaaat----aaatgactcccaaataatttatagtaacactgcagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagccagatcagctcaaatgagg---taa-tattctgatga--ctgagttttcagtagaagcaG--AAAAAAAAAA
i manLeu1.NW_012103476v1    C 0 I 3
s colAng1.NW_012120598v1      5260623 180 -  13750039 AGAGCTC---AAATTTTA-Gaataaaaat----aaatgactcccaaataatttatagtaacactgtagaaaatc-aaagac----agatacattatttt---aaaagtcagggttagagtaggagaaaagctacatc-gctcaaatgagg---taa-tattctgatga--ctgagttttcagtagaagcaGAAAAAAAAAAAA
i colAng1.NW_012120598v1    C 0 I 3
s calJac3.chr21              26520005 178 +  50472720 AGAGCTC---AGAATATATGAATAAAAAT----AAATGATAT-CAAACAATTTATGATAACACTGTAGAAAATCAAAAGAC----AGATACATTA-TTT---GAAAGTCGGTGTTAGGGGCGCAGGAAAGCTAGATCAGCTCCAAGGAGG---TAA-TATTCTGATGA--CTGATGTTTCTTTAGAAGTAG---Gaaaaaaaa
i calJac3.chr21             I 336 I 22
s saiBol1.JH378168            8700595 179 +  13128814 agagctc---aaaatttatgaataaaaat----aaatgatatccaaacaatttataataacactgtagaaaatcaaaagac----atatacctta-ttt---gaaagtcagtgttagggtcacaagaaaactagatcagctccaatgaag---taa-tattctgacga--ctgacgtttcattagaagcaG---aaaaaaaaa
i saiBol1.JH378168          I 8 I 11
s cebCap1.NW_016107322v1     13944310 177 -  14377064 CAAGGTC---AAAATTTATGAATAAAAAT----AAGTGATATCCAAACAATTTATAATA--ACTGTAGAAAATCAAAAGAC----AGATACATTA-TTT---GAAAGTCAGTGTTAGGGTCGCAGGAAAGCTAGATCAGCTCCAATGAGG---TAA-TATTCTGATGA--CTGACGTTTCATTAGAAGCAG---aaaaaaaaa
i cebCap1.NW_016107322v1    I 7 I 139
s aotNan1.NW_018487195v1      9168398 178 -   9889416 AGAGCTC---AAATTTTATGAATAAAAAT----AAATGATATCCAAACAATTTATAATAACACTGTAGAAAATC-AAAGAC----AGATACATTA-TTT---GAAAGTCAGTGTTAGGGTCGCAGGAAAGCTAGATCAGCTCCAGTGAGG---TAA-TATTCTGATGA--CTGAGGTTTCATTAGAAGCAG---AAAAAAAAA
i aotNan1.NW_018487195v1    I 8 I 6
s otoGar3.GL873528           24884433 176 -  38779656 AGTGATTTTGAAATTTCataaataaaaat----acataacacctatacattttattataaaactgaaaaaaatc-aaagac----agaaa----acatt---tgaagtcattggtggagcaggagaaaag----atcagctccagtgagg---taa-aacttctctgagcctgagttgtctgcagaagcag---ttaaggaaa
i otoGar3.GL873528          I 23 I 5
s canFam3.chr31              18062516 183 +  39895921 aaggttc---aaattgtatgaataaaaat----aaatgacacatagacatttaataatgaaactgaagaaaatc-aacgat----ggagagactacccttaaaaaaaccagaggtggggtagagggaagttcagattagcttcaaaaaggga-taattactccaatgg--ctaaa--ctccacagaatcag---tgaaagaag
i canFam3.chr31             I 8 C 0
s dasNov3.JH578070            2413853 190 +   3081153 aaagccc---aaattagatggaggaaaataaagaaatgacacatagatacttcataatgtaactgaagaatatg-aaagacaaagagaaatattaaaaa---aaaaagcagacctgaggagaggggaaagacagattagttccactgaggaaccat-tattgtgatga--ccgagttctcaacagaatcaa---tgaaagaag
i dasNov3.JH578070          I 10 C 0
e micMur3.chr31              23719470 1003 +  47401472 I

a score=235289.000000
s hg38.chr21_GL383579v2_alt    122843 32 +    201197 GCTCTATGTCAGTTA-GTTCCATGTATGGAAAG
s panTro5.chr21               8741693 32 +  33445071 GCTCTATGTCAGTTA-GTTCCATGTATGGAAAG
i panTro5.chr21             I 1 C 0
s panPan2.chr21              22280805 32 +  46275980 GCTCTATGTCAGTTA-GTTCCATGTATGGAAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263379 32 -  13858734 GTTCTATGTCAGTTA-GTTCCATGTATGGAAAG
i gorGor5.CYUI01015003v1    I 1 C 0
s nomLeu3.chr25               9287673 32 +  32716333 GCTGTATGTCAGTTA-GTTCCATGTATGGAAAG
i nomLeu3.chr25             I 1 C 0
s rheMac8.chr3              160701151 32 - 185818997 GCTCTATGTCAGTTA-GTTCCATGCATGGAAAG
i rheMac8.chr3              I 3 C 0
s macFas5.chr3              167335844 32 - 192294377 TCTCTATGTCAGTTA-GTTCCATGCATGGAAAG
i macFas5.chr3              I 3 C 0
s macNem1.NW_012015021v1      4971936 32 -  30496662 GCTCTATGTCAGTTA-GTTCCATGCATGGAAAG
i macNem1.NW_012015021v1    I 3 C 0
s cerAty1.NW_012002954v1     13484251 32 +  21915920 GCTCTATGTCAGTTA-GCTCCATGCATGGAAAG
i cerAty1.NW_012002954v1    I 3 C 0
s chlSab2.chr2               19985291 32 -  90373283 GCTCTATGTCTGTTA-GTTCCATGCACGGAAAG
i chlSab2.chr2              I 3 C 0
s manLeu1.NW_012103476v1      3490859 32 +   7543664 GCTCTATGTCTCTTA-GTTCCATGCATGGAAAG
i manLeu1.NW_012103476v1    I 3 C 0
s colAng1.NW_012120598v1      5260806 32 -  13750039 GCTCTAGGTCAGTTA-GTTCCATGTATGGAAAA
i colAng1.NW_012120598v1    I 3 C 0
s calJac3.chr21              26520205 29 +  50472720 aCCTTAAGTCATTTA-GTTCCAAGAATGGA---
i calJac3.chr21             I 22 C 0
s saiBol1.JH378168            8700785 29 +  13128814 GCGTTAAGTCAGTTA-GTTTCAAGAATGGA---
i saiBol1.JH378168          I 11 C 0
s aotNan1.NW_018487195v1      9168582 29 -   9889416 GCCTTAAGTCAGTTA-GTTCCAAGAATGGA---
i aotNan1.NW_018487195v1    I 6 C 0
s otoGar3.GL873528           24884614 28 -  38779656 gaattatgtc----a-gttccaggtgctaaaat
i otoGar3.GL873528          I 5 C 0
s canFam3.chr31              18062699 30 +  39895921 --tcaatggatctca-gttctgtatactgaaaa
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414043 31 +   3081153 --tcaacgaatgctatgctctatgtactaaaag
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e cebCap1.NW_016107322v1     13944487 139 -  14377064 I

a score=8281.000000
s hg38.chr21_GL383579v2_alt    122875 1 +    201197 A
s panTro5.chr21               8741725 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280837 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263411 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287705 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701183 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335876 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971968 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484283 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985323 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490891 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260838 1 -  13750039 A
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18062729 1 +  39895921 a
i canFam3.chr31             C 0 I 18
s dasNov3.JH578070            2414074 1 +   3081153 a
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e cebCap1.NW_016107322v1     13944487 139 -  14377064 I
e aotNan1.NW_018487195v1      9168611 0 -   9889416 C
e calJac3.chr21              26520234 0 +  50472720 C
e saiBol1.JH378168            8700814 0 +  13128814 C
e otoGar3.GL873528           24884642 0 -  38779656 C

a score=16304.000000
s hg38.chr21_GL383579v2_alt    122876 3 +    201197 CAA-
s panTro5.chr21               8741726 3 +  33445071 CAA-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280838 3 +  46275980 CAA-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263412 3 -  13858734 CAA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287706 3 +  32716333 CAA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701184 3 - 185818997 TAA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335877 3 - 192294377 TAA-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971969 3 -  30496662 TAA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484284 3 +  21915920 TAA-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985324 3 -  90373283 CAA-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490892 3 +   7543664 CAA-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260839 3 -  13750039 CAA-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520234 2 +  50472720 -AA-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8700814 2 +  13128814 -AA-
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9168611 2 -   9889416 -AA-
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2414075 3 +   3081153 -aaa
i dasNov3.JH578070          C 0 I 6
e micMur3.chr31              23719470 1003 +  47401472 I
e cebCap1.NW_016107322v1     13944487 139 -  14377064 I
e canFam3.chr31              18062730 18 +  39895921 I
e otoGar3.GL873528           24884642 0 -  38779656 C

a score=190643.000000
s hg38.chr21_GL383579v2_alt    122879 22 +    201197 GACAGTAACTTGTATTCCAAGA
s panTro5.chr21               8741729 22 +  33445071 GACAGTAACTTGTATTCCAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280841 22 +  46275980 GACAGTAACTTGTATTCCAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263415 22 -  13858734 GACAGTAACTTGTATTCCAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287709 22 +  32716333 GACAGTAACTTGTATTCCAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701187 22 - 185818997 GACAGTAACTTATATTCTAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335880 22 - 192294377 GACAGTAACTTGTATTCTAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971972 22 -  30496662 GACAGTAACTTGTATTCTAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484287 22 +  21915920 GACGGTAACTTGTATTCTAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985327 22 -  90373283 GACGGTAACTTGTATTCTAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490895 22 +   7543664 GACGGTACCTTGTATTCTAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260842 22 -  13750039 GACGGTAACTTGTATTCCAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520236 22 +  50472720 GACAGTAACTTGTACTCAAAGA
i calJac3.chr21             C 0 I 8
s saiBol1.JH378168            8700816 22 +  13128814 GACAGTAACTTGTACTCAAAGA
i saiBol1.JH378168          C 0 I 8
s aotNan1.NW_018487195v1      9168613 22 -   9889416 GACAGTAACTTGTACTCAAAGA
i aotNan1.NW_018487195v1    C 0 I 8
e micMur3.chr31              23719470 1003 +  47401472 I
e dasNov3.JH578070            2414078  6 +   3081153 I
e cebCap1.NW_016107322v1     13944487 139 -  14377064 I
e canFam3.chr31              18062730 18 +  39895921 I
e otoGar3.GL873528           24884642  0 -  38779656 C

a score=3516186.000000
s hg38.chr21_GL383579v2_alt    122901 394 +    201197 caagtttagcccaaagctgcctctttacatatttaagttcagcctgaaggtttttctgtacattgtgaaatataacaagtggaagtgt-aaactgaccctagcctgcacctgtgccaatcactgagttttggccagtgaaatgtagccaactgtttgaactgtgttcaaataaggcacacactgagctgtaaccaatccagttgtttctatatctcacttctgatttctgtactcgcttctctctctctct-------------------------------tttttttctttgtctagaagtctt-ccaccacatggctttgctggagtctctctgaatctgctgtgattctgggggctgcacaattcgtaaatcgttcattgcttaattaaact---ttaaatttaattaggctgaagtttttcttta
s panTro5.chr21               8741751 397 +  33445071 caagtttagcccaaagctgcctctttacatatttaagttcagcctgaaggtttttctgtacattgtgaaatataacaagtggaagtgt-aaactgaccctagcctgcacctgtgccaatcactgagttttggccagtgaaatgtagccaactgtttgaactgtgttcaaataaggcgcacactgagctgtaaccaatccagttgtttctatatctcacttctgatttctgtactcgcttctctctctctct-------------------------------tttttttctttgtctagaagtctt-ccaccacatggctttgctggagtctctctgaatctgctgtgattctgggggctgcacaattcgtaaatcgttcattgcttaattaagctcctttaaatttaattaggctgaagtttttcttta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22280863 397 +  46275980 caagtttagcccaaagctgcctctttacatatttaagttcagcctgaaggtttttctgtacattgtgaaatataacaagtggaagtgt-aaactgaccctagcctgcacctgtgccaatcactgagttttggccagtgaaatgtagccaactgtttgaactgtgttcaaataaggcgcacactgagctgtaaccaatccagttgtttctatatctcacttctgatttctgtactcgcttctctctctctct-------------------------------tttttttctttgtctagaagtctt-ccaccacatggctttgctggagtctctctgaatctgctgtgattctgggggctgcacaattcgtaaatcgttcattgcttaattaagctcctttaaatttaattaggctgaagtttttcttta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263437 391 -  13858734 caagtttagcccaaagctgcctctttacatatttaagttcagcctgaaggtttttctgtacattgtgaaatataacaagtggaagtgt-aaactgaccctagcctgcacctgtgccaatcactgagttttggccagtgaaatgtagccaactgtttgaactgtgttcaaataaggcgcacactgagctgtaaccaatccagttgtttctatatctcacttctgatttctgtactcgcttctctctctctct-------------------------------tttttttctttgtctggaagtctt-ccaccacatggctttgctggagtctc------tctgctgtgattctgggggctgcacaattcgtaaatcgttcattgcttaattaaactcctttaaatttaattagcctgaagtttttcttta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9287731 395 +  32716333 caagtttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatataacaagtggaagtgt-aaactgaccctagcccacacctgtgccaatcactgagttttggccaatgaaatgtagccaactgtttgaactgtgttcaaataaggtgtacactgagctgtaaccaatccagttgtttctatatctcacttccaatttctgtactcact--tctctctctct-------------------------------tttttttctttgtctagaagtctt-ccaccacatggctttgctggagtctctctgaatctgctgtgattctgggggctgcacgattcgtaaatcgttcattgcttaattaaactcctttaaatttaattaggttgaagttttccttta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701209 415 - 185818997 cgaatttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgt-aaactgaccctagtccgcacctgtgccaatcactgagttgtggccaatcaaatgtagccaactgtttgaactgtgctcaaataaggcacacactgagctgtaaccaatccagttgcttctatatctcacttccaatttctgtactcacttctctctctctctctgtttttt--------------tttttttttttttttttttgtctagaagtcttaacaccacatggctttcctggagtgtctctgaatctgctgtgatcctggtggcagtgcaatttgtaaatcatttgttgcttaattaaactcctttaaatttaattaggctgaagtttttctcta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167335902 415 - 192294377 cgaatttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgt-aaactgaccctagtccgcacctgtgccaatcactgagttgtggccaatcaaatgtagccaactgtttgaactgtgctcaaataaggcacacactgagctgtaaccaatccagttgcttctatatctcacttccgatttctgtactcacttctctctctctctctgtttttt--------------tttttttttttttttttttgtctagaagtcttaacaccacatggctttcctggagtgtctctgaatctgctgtgatcctggtggcagtgcaatttgtaaatcgtttgttgcttaattaaactcctttaaatttaattaggctgaagtttttctcta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4971994 409 -  30496662 cgaatttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgt-aaactgaccctagtccgcacctgtgccaatcactgagttgtggccaatcaaatgtagccaactgtttgaactgtgctcaaataaggcacacaccgagctgtaaccaatccagttgcttctatatctcacttccgatttctgtactcacttctctctctctctctg--------------------cttttttttttttttttttgtctagaagtcttaacaccacatggctttcctggagtgtctctgaatctgctgtgatcctggtggcagtgcaatttgtaaatcgtttgttgcttaattaaactcctttaaatttaattaggctgaagtttttctcta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484309 420 +  21915920 cgaatttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgt-aaactgaccctattccgcacctgtgccaatcactgagttgtggccaatcaaatgtagccaactgtttgaactgtgttcaaataaggcacacactgatctgtaaccaatccagttgtttctatatctcacttccgatttctgtactcacttctctctctctctctctgtttt---------atttatttatttatttatttttttatccagaagtcttaacaccacatggctttcctggagtatctctgaatctgctgtggtcctggtggcagtgcaattcgtaaatcatttgttgcttaattaaactcctttaaatttaattaggctgaagtttttctcta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985349 410 -  90373283 caaatttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgt-aaactgaccctagcccgcacctgtgccagtcactgagttgtggccaatcaaatgtagccaactgtttgaactgtgttcaaataaggcacacactgagctgtaaccaatccagttgcttctatatctcacttatgatttctgtactcacttctctctctctctctctttgt-------------------tttttttttttttttgtctagaagtcttaacaccacatggctttcctggagtgtctctgaatctgctgtgatccaggtggcagtgcaattcgtaaatcatttgttgcttaattaaactcctttaaatttaattaggctgaagtttttctcta
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3490917 428 +   7543664 caaatttagcctaaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgt-aaactgaccctattccgcacctgtgccaatcactgagttgtggccaatcaaatgtagccaactgtttgaactgtgttcaaataaggcacacactgagctgtaaccaatccagttgtttctatatctcacttccgatttctgtactcacttctctctctctctctctctctc-tctgttttatttatttatttatttatttttttatccagaagtcttaacaccacatggctttcctggagtatctctgaatctgctgtggtcctggtggcagtgcaattcgtaaatcatttgttgcttaattaaactcctttaaatttaattaggctgaagtttttctcta
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5260864 429 -  13750039 caagttaagcctaatgctgcctctttacatatttaagttcagcctaaaggtttttctgtacattgtgaaatgtaacaagtggaagtgg-aaactgaccctagcccgcacctgtgccaatcactgagttgtggccaatcgaatgcagccaactgtttaaactgtgttcaaataaggcgcacactgagctgtaaccaatccagttgcttccatatttcacttctgatttctgtactcacttctctctctctctctgtttttgtttttttttgtttgtttgtttgtttgtttgtttgtctagaagtcttaacaccacatggctttcctggagtgtctctgaatctgctgtgatcctggtggcagtgtgattcgtaaatcgtttgttgcttaattaaactcctttaaattgaattaggctgaagtttttctctA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520266 384 +  50472720 CTagtttatcgtaaagctgcctctttacatatttaagttcggcttaaaagtttttctgtatattgtgaaatataagaagtggaagtgt-aaactgaccttagcctacacctgtgccaatcactgagttttggctaatcaaatgtacccaagtgtttgacctgtgttcaaataaggcacgcactgagctgtaaccaatccagttgtttccataactcacttccaaaatctgtactcacttctc--------------------------------------------tttctttgtgtagaaatgtt-ccaccacatgaccttgctggagtctctctgaatctgctgtgattctaggggttgcatgattcacaaatcgttcattggttaactaaactcctttcaatttaattcggctgaagtttttcctta
i calJac3.chr21             I 8 C 0
s saiBol1.JH378168            8700846 383 +  13128814 GCagtttacgataaagctgcctctttacatatttaagttcagcctaaaggtttttctgtacgttgtgaaatacagcaagtggaagtgtaaaactgaccttagcccacatctgtgccaatcactgaattttggctaatcaaatgtacccaagtgtttgaac--tgttcaaataaggcacacactgagctgtaaccaatccggttgtttctataactcacttccaatttctgtactcacttctc--------------------------------------------tttctttgtgtagaaatttt-ccaccacatggccttgctggagtgtctctgaatctgctgtgattctaggggttgcatgattcacaaatcgttcattggttaactaaactcctttaaatttaattcggctgatgtttttcctta
i saiBol1.JH378168          I 8 C 0
s cebCap1.NW_016107322v1     13944626 383 -  14377064 caagtttagcttaaagctgcctccttacatatttaagttcggcctaagggtttttctgtacattgtgaaatataacaagtggaagtgt-aaactgaccttagcccccacctctgccaatcactgagttttggctaatcaaatgtacccaagtgtttgaactgtgttcaaataaggcacacactgagctataaccaatccagttgtttctataactcacttccaatttctgtactcacttctc--------------------------------------------tttctttgtgtagaaatttt-ccaccacatggccttgctggagtctctctgaatctgctgcgattccagggtttgcctgattcacaaatcattcattggttaactaaactccttt-agtttaatttggctgaagtttttcctta
i cebCap1.NW_016107322v1    I 139 C 0
s aotNan1.NW_018487195v1      9168643 338 -   9889416 CCAATTTACAGtaaagctgtctctttaagtatttaagtttggcctagaggtttttctgtacattgtgaaatataaaaagtggaagtat-a--------------------------------------------aatcaaatgtacccaagtgtttgaactgtgttcaaataaggcacacactgagctttaaccaatccagttgtttctataactcacttccgatttctgtactcacttctc--------------------------------------------tttctttgtgtagatgtttt-ctaccacatggccttgcctgagtttctctgaatctgct--gattctggaggttgagcgattcacaaatcattcattggttaactaaactcctttaaatttaattcggctgaagtttttcctta
i aotNan1.NW_018487195v1    I 8 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e dasNov3.JH578070            2414078   6 +   3081153 I
e canFam3.chr31              18062730  18 +  39895921 I
e otoGar3.GL873528           24884642   0 -  38779656 C

a score=56675.000000
s hg38.chr21_GL383579v2_alt    123295 5 +    201197 aacaT
s panTro5.chr21               8742148 5 +  33445071 aacaT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281260 5 +  46275980 aacaT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263828 5 -  13858734 aacaT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288126 5 +  32716333 aacaT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701624 5 - 185818997 aacaT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336317 5 - 192294377 aacaT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972403 5 -  30496662 aacaT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484729 5 +  21915920 aacaT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985759 5 -  90373283 aacaT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491345 5 +   7543664 aacaT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261293 5 -  13750039 AAAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520650 5 +  50472720 aacaT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8701229 5 +  13128814 aacaT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945009 5 -  14377064 aacaT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9168981 5 -   9889416 aacaT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24884642 5 -  38779656 aaaat
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e dasNov3.JH578070            2414078 6 +   3081153 I
e canFam3.chr31              18062730 18 +  39895921 I

a score=9557.000000
s hg38.chr21_GL383579v2_alt    123300 1 +    201197 C
s panTro5.chr21               8742153 1 +  33445071 C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281265 1 +  46275980 C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263833 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288131 1 +  32716333 C
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701629 1 - 185818997 C
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336322 1 - 192294377 C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972408 1 -  30496662 C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484734 1 +  21915920 C
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985764 1 -  90373283 C
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491350 1 +   7543664 C
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261298 1 -  13750039 C
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520655 1 +  50472720 C
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8701234 1 +  13128814 C
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945014 1 -  14377064 T
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9168986 1 -   9889416 C
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24884647 1 -  38779656 a
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18062748 1 +  39895921 c
i canFam3.chr31             I 18 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e dasNov3.JH578070            2414078 6 +   3081153 I

a score=2313711.000000
s hg38.chr21_GL383579v2_alt    123301 213 +    201197 TCCATCTAGTAATAAaaaat--t-tctttcaagaattagaacttataaagat---tttttagatgaacc--accaaattataatc-actacc-aaaagataaataatgcaagaaatgtcaagcctgttacactaataaaagtaaagtaattctagataggaccttgaattgcaa-caagttatgaagattgaataaatacatgagcaggtttgaaaatcaagta
s panTro5.chr21               8742154 213 +  33445071 TCCATCTAGTAATAAaaaat--t-tctttcaagaattagaacttataaagat---tttttagatgaacc--accaaattataatc-actacc-aaaagataaatagtgcaagaaatgtcaagcctgttacactaataaaagtaaagtaattctagataggagcttgaattgcaa-caagttatgaagattgaataaatacatgagcaggtttgaaaatcaagta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281266 213 +  46275980 TCCATCTAGTAATAAaaaat--t-tctttcaagaattagaacttataaagat---tttttagatgaacc--accaaattataatc-actacc-aaaagataaatagtgcaagaaatgtcaagcctgttacactaataaaagtaaagtaattctagataggagcttgaattgcaa-caagttatgaagattgaataaatacatgagcaggtttgaaaatcaagta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8263834 213 -  13858734 TCCATCTAGTAATAAaaaat--t-tctttcaagaattagaacttatgaagat---tttttagatgaacc--accaaattataatc-actacc-aaaagataaatagtgcaagaaatgtcaagcctgttacactaataaaagtaaagtaattctagataggagcttgaattgcaa-caagttatgaagattgaataaatacatgagcaggtttgaaaatcaagta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288132 209 +  32716333 TCCATCTAGTAATACAAAAC--T-TCTTTCAAGAATTAGAACTTATAAAGATA--TTTTTAGATGAACC--ACCAAATTATAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATGTCAAGCCTATTACATTAATA-----AAAGTAATTGTAGATAGGAGCTTGAATTGCAA-CAAGTTATGAAGATTGAATAAATACATGAGCAGGTTTGAAAATCAAgta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701630 209 - 185818997 TTCATCTAGTAATAAAAAAA--T-TCTTTCAAGAATTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAACTATAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATGTCAAGCCTGTTACACTAATA-----AAAGTAATGCTAGATAAGAGCTTGAATTGCAA-CAAATTATGAAGGTTCAATAAATACATAAGCAGGTTTGAAAATCAAgta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336323 209 - 192294377 TCCATCTAGTAATAAAAAAA--T-TCTTTCAAGAACTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAACTATAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATGTCAAGCCTGTTACACTAATA-----AAAGTCACGCTAGATAAGAGCTTGAATTGCAA-CAAATTATGAAGGTTCAATAAATACATAAGCAGGTTTGAAAATCAAgta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972409 209 -  30496662 TCCATCTAGTAATAAAAAAA--T-TCTTTCAAGAATTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAACTATAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATGTCAAGCCTGTTACACTAATA-----AAAGTAATGCTAGATAAGAGCTTGAATTGCAA-CAAATTATGAAGGTTCAATAAATACATATGCAGGTTTGAAAATCAAgta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484735 209 +  21915920 TCCATCTAGTAATAAAAAAA--T-TCTTTCAAGAATTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAACTATAATC-ACTACC-ACAAGATAAATAGTGCAAGAAATGTCAAGCCTGTTACACTAATA-----AAAGTAATGCTAGATAGGAACTTGAATTGCAA-CAAGTTATGAAGGTTCAATAAATACATAAGCAGGTTTGAAAATCAAgta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985765 209 -  90373283 TCCATCTAGTAATAAAAAAA--T-TCTTTCAAGAATTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAACTATAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATGTCAAGCCTGTTACACTAATA-----aaagtaatgctagataggagcttgaattgcaa-caagttatgaaggttcagtaaatacataagcaggtttgaaaatcaagta
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491351 209 +   7543664 TCCATCTAGTAATAAAAAAA--T-TATTTCAAGAATTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAACTATAATC-ACTACC-ACAAGATAAATAGTGCAAGAAATGTCAAGCCTGTTACACTAATA-----AAAGTAATGCTAGATAGGAACTTGAATTGCAA-CAAGTTATGAAGGTTCAATAAATACATAAGCAGGTTTGAAAATCAAgta
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261299 209 -  13750039 TCCATCTAGTAATGCAAAAA--T-TCTTTCAAGAATTAGAACTTACAAAGATA--TTTTTAGATGAGCC--ACCAAATTATAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATCTCAAGCTTGTTACACTAATA-----AAAGTAATGCTAGATAGGAGCTTGAATTACAA-CAAGTTATGAAGGTTCAATAAATACGTAAGCAGCTTTGAAAATCAAgta
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520656 214 +  50472720 GACATCTAGTACTAAAAAAA-AT-TCTTTCAAGAATTAGAACTTATAAAGATA--TTT-TAGATGAACA--AACAAATTACAATC-ACTACC-AAAAGATAAATAGTGCAAGACACGTCAAACCTGCTACACTAATAAAAGTAAAGTATTACCAGCTAAGGGCTTGAATTACAA-GAAGTTATGAAGATTAGATAAATACATGAGCTGGTTTGAAAATCAAgta
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8701235 217 +  13128814 AACATCTAGTAATAaagaaattt-tctttcaagaattagaacttataaagatattttt-tagaagaaca--accaaattacaatc-accacc-aaaagatagatagtgcaagaaacgtcaaacctgttgcactaataaaagtaaagtaatatcaggtaggggcttgaattgcaa-caagttatgaagattagataaatacatgagcgggtttgaaaattaagta
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945015 214 -  14377064 GACATGTAGTAATAAAAAAA-CT-TCTTTCAAGAATTAGAACTTATAAAGATT--TTT-TAGATAAACA--ACCAAATTACAATC-ACTACC-AAAAGATAAATAGTGCAAGAAACATCAAGCCTGTTACACTAATAAAAGTAAAGTAATATCAGGTGGGGGCTTGAATTGCAA-CAAGTTATGAAGATTAGATAAATACATGAGTAGGTTTGAAAATCAAgta
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9168987 216 -   9889416 ACCATCTAGTAATAAAAAAAATT-TCTTTCAAGAATTAGAACTTATAAAGATA--TTTATAGATGAACA--AACAAATTACAATC-ACTACC-AAAAGATAAATAGTGCAAGAAATGTCAAATCTGTTACGCTAATAAAAGTAAAGTAATACCAGCTAGGGGCTTGAATTACAA-CAAGTTATGAAGATTATATAAATACATGAGCCGGTTTGAAAATCAAGTA
i aotNan1.NW_018487195v1    C 0 I 38
s otoGar3.GL873528           24884648 213 -  38779656 gctatctagcaatgagaaat--tatctttggagaattaggacatataaaagca--tttttagatagaactaaccaaattacagtc-tctatc-aaaagatgaaaaatataagaaattcccagactattatacccaaagaaggaaactaatatcacatagaagcttgaagtgcaa-taaaatatga----tgaataaatacgtgaacagatgtataaattaagta
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18062749 216 +  39895921 ttcgttcagcagtaaaacat--a-tctttcaaaaaggagggcaaataaaaatg--tttttgtatgagga-aaccaaattagagtc-accgctaaaaagatgcatagtataagagatttcaagactgctacagagatagaaggaaatcaatactggagagaagcttgaggtggaa-catattaggaagattaaataaataagtgagcaggtttgaaaatccatta
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414084 179 +   3081153 tccattcagcagtgaaaaat--a-tcttttaagaatgagagtaaataaacaca--ttttaaaatgaaca-aaaccaattacattcaaccacc-aaaaga-----ggtacaggaaatttcaa---------------------------------gatagaagcttgacatgcaaggaagctatgaagattgtataactctatgagcaggtttaagaacctcata
i dasNov3.JH578070          I 6 C 0
e micMur3.chr31              23719470 1003 +  47401472 I

a score=2103969.000000
s hg38.chr21_GL383579v2_alt    123514 227 +    201197 aatatgtaggttaatataaatgaatattcatggtgtcaaacagaaacgttttaggggattta-aaatacaaatatattgaattaaaacatctgacatgac-----ta-----taaattggaagggtagaaatggagtt-aaagtcttttaaattacttgctcttttgaaaaggaaggtcaagataagacaaaaaaactttattaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-gaAG
s panTro5.chr21               8742367 227 +  33445071 aatatataggttaatataaatgaatattcatggtgtcaaacagaaacgttttaggggattta-aaatacaaatatattgaattaaaacatctgacatgac-----ta-----taaattggaagggtagaaatggagtt-aaagtcttttaaattacttgctcttttgaaaaggaaggtcaagataagacaaaaaaactttattaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-gaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281479 227 +  46275980 aatatgtaggttaatataaatgaatattcatggtgtcaaacagaaacgttttaggggattta-aaatacaaatatattgaattaaaacatctgacatgac-----ta-----taaattggaagggtagaaatggagtt-aaagtcttttaaattacttgctcttttgaaaaggaaggtcaagataagacaaaaaaactttattaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-gaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264047 227 -  13858734 aatatgtaggttaatataaatgaatattcatggtgtcaaacagaaacgttttaggggattta-aaatacaaatatattgaattaaaacatctgacgtgac-----tg-----taaattggaagggtagaaatggagtt-aaagtcttttgaattacttgctcttttgaaaaggaaggtcaagataagacaaaaaaactttattaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288341 227 +  32716333 aatatgtaggttaatataaatgaatattcatggtgtccaacagaaacgttttagggtattta-aaatacaaatatactgaattaaaacatctgacataac-----tg-----taaattggaagggtagaaatggagtt-aaagtcttttaaattacttgctcttttgaaaaggaaggtcaagataagacaaaaacactttattaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-aaAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160701839 219 - 185818997 aatatgtaggttaatataaatgaatattcattgtgtcaaacagaaacattttaggggattta-aaatacaaatatatagaattaaaacatctgacataac------------taaattggaagggtataaatggagtt-aaagtc--ttaaattatttgcacttttggaaaggaaggtcaagataag----aaaaactttagtaagtcagaggtgcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336532 220 - 192294377 aatatgtaggttaatataaatgaatattcattgtgtcaaacagaaacattttaggggattta-aaatacaaatatatagaattaaaacatctgacataac------------taaattggaagggtataaatggagttaaaagtc--ttaaattatttgcacttttggaaaggaaggtcaagataag----aaaaactttagtaagtcagaggtgcatgttttaatttctt--------------------------------------------------------------------gagt-aaAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972618 219 -  30496662 aatatgtaggttaatataaatgaatattcattgtgtcaaacagaaacattttaggggattta-aaatacaaatatatagaattaaaacatctgaaataac------------taaattggaagggtataaatggagtt-aaagtc--ttaaattatttgcacttttggaaaggaaggtcaagataag----aaaaactttagtaagtcagaggtgcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13484944 221 +  21915920 aatatgtaggttaatataaatgaatattcattgtgtcaagcagaaacgttttaggggattta-aaatacaaatatatagaattaaaacatctgacataac-----tg-----taaattggaagggtataaatggagtt-gaagtc--ttaaattatgtgcacttttggaaaggaaggtcaagataag----aaaaactttagtaagtcagaggtgcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19985974 221 -  90373283 aatatgtaggttaatataaatgaatattcattgtgtcaaacagaaacattttaggggattta-aaatacaaatatatagaattaaaacatctgacataac-----tg-----taaattggaagggtataaatggagtt-aaagtc--ttaaattatttgcacttttggaaaggaaggtcaagataag----aaaaactttagtaagtcagaggtgcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491560 221 +   7543664 aatatgtaggttaatataaatgaatattcattgtgtcaaacagaaacgttttaggggattta-aaatacaaatatatagaattaaaacatctgacataac-----cg-----taaattggaagggtataaatggagtt-aaagtc--ttaaattatttgcacttttggaaaggaaggtcaagataag----aaaaactttagtaagtcagaggtgcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261508 221 -  13750039 aatatgtaggttaatataaatgaatattcattgtatcaaacagaaacattttaagggattta-aaatacaa--atatagaattaaaacacctgacataac-----tg-----taaattggaagggtatgaatggagtt-aaagtcttttaaattatttgcacttttggaaaggaaggtcaagataag----aaaacctttagtaagtcagaggtacatgttttaatttctt--------------------------------------------------------------------caat-aaag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26520870 224 +  50472720 aatatgtaggttaatataaatgaatattcattgtgtc--aaaataacattctagggaattta-aaatacaaac----agaatcaaagcatctgaaacaac--aagtg-----taaattggaagagtataaatggactt-aaaatcttttaaattactttcacttttgaaaaggaaagtcaagataaagaaaacaaacttcagtaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-aaAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8701452 214 +  13128814 actatgtaggttaatataaatgaatattcattgtgtctaacagtaacattctagggaattta-----------------agttaaagcatctgacataac--aagtg-----tacattggaagagtataaatggactt-aaaatcttttaaactacttgcacttttgaaaaggaaggtgaagataagaaaaacaaactttagtaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-aaAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945229 230 -  14377064 aatatgtaggttaatataaatgaatattcattgtgtctaacagtaacattctagagaatttg-gaatacaaacat--agaattaaagcatctgacataacttaagtg-----taaattggacgcatataaatggactt-aaagtcttttaaatttcttgcacttttgaaaaggaatgtgaagataagaaaaacaaacttcagtaagtcagaggttcatgttttaatttctt--------------------------------------------------------------------gagt-aaag
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24884861 233 -  38779656 aatatgcaggcaaatgtaaattaat-ttcattgtgcaaaataaaaatgttttatgagatttaaaaatacacatatgtagaattaaagcatttgccataac-----tgacatttaagtttgaaggatttaaaggaagca-aaactcttctaaactatttataattttggcaagAGAAGTCTAGATAAGAAAAACAAACCCTTGGAAATCACAGatttatatgttaatttttt--------------------------------------------------------------------aaataaaaa
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18062965 288 +  39895921 aatatgcagataaatctaagtgaatgctccctacataaaacaaaaatattttataagattta-aaatacacatttacagaattaaagtacctgacaGAGT-----TGGCATATAAATTGGAAGGATATACATAGAGTC-TAAGTCTTTTG-----------CTTTTGAGAAGCAAAATCAAAGTCAGATA-ACAAACCTAGTTAAGTCAATGGTTCATGGTTTAACTCtttttaaatgttttatgatttttatttgttcatgagagacagaaagagagagaggcagagacatagagagaggga-gaag
i canFam3.chr31             C 0 I 114
s dasNov3.JH578070            2414263 211 +   3081153 catatgcagatggatctaaatgaatatttattgtattaagacgag--tttttatgagattta-aaaataacacatatagaattgaagcatatgataTAAT-----TGGCATATAAATTGGCAAG---TAAACACA-TT-AACATCTTTTATATTACATGCAATTTTAGAAAGGAAAATAAAGATAAG----AACAA-----------CGGGGATTCATGTTTTAAttcctt--------------------------------------------------------------------gagt-aaaa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=578911.000000
s hg38.chr21_GL383579v2_alt    123741  65 +    201197 AAGGTTCAAAAAAAAT------gtaaacatcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
s panTro5.chr21               8742594  65 +  33445071 aaggttcacaaaaaat------gtaaacatcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281706  65 +  46275980 aaggttcacaaaaaat------gtaaacatcttagttgatg--gaacaaggagagcttc--------------------------------------------------acttgagattt-----------------ttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264274  65 -  13858734 aaggttcacaaaaaat------gtaaacatcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288568  70 +  32716333 CAGGTTCacaagaaat-gtagagtaaacatcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702058  71 - 185818997 aaggttcacaaaaaaatctagagtaaccgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336752  71 - 192294377 AAGGTTCACAaaaaaatctagagtaaccgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972837  71 -  30496662 aaggttcacaaaaaaatctagagtaaccgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485165  71 +  21915920 aaggttcacaaaaaaatctagagtaaatgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986195  71 -  90373283 aaggttcacaaaaaaatcgagagtaaacgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491781  71 +   7543664 aaggttcacaaaaaaatctagagtaaacgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261729  71 -  13750039 aaggttcacaaaaaaatgtaaagtaaacgtcttagttgatg--gaacaaggaaagcttc--------------------------------------------------acttgagattt-----------------ttt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521094  65 +  50472720 AACGTTCACAAAAAAT-CTAGAGTGAAC-----AATTGATG--GAACATAAAAAACTTC--------------------------------------------------ACGAGAGATAT-----------------TTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8701666  70 +  13128814 AAGGTTCACAAGAAAT-CTAGGGTAAACATCTTAACTGACA--GAATATGAAAAACTTC--------------------------------------------------ATTTGAGACtt-----------------ttt
i saiBol1.JH378168          C 0 I 282
s cebCap1.NW_016107322v1     13945459  70 -  14377064 aaggttcacaaaaaat-ctagaataaacattttaactgata--gaatatgaaaagcttc--------------------------------------------------atttgaggcct-----------------ttt
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24885094  88 -  38779656 aaGGTCTACAAAAAAATCAAGGATAAACATCTTAGTTAATG--AAACATGGAAAGCACC--------------------------------------------------ACTTGAGatttaaaataattaaaaaatattt
i otoGar3.GL873528          C 0 I 94
s canFam3.chr31              18063367 120 +  39895921 AAGGTCTACAAAAAAATCTAGAGAAAGTAACTTAA-TGATG--AAAAATGGAAAGttttttatttatttatttattcatgagagacacagagaCACCTGGAAAGCTCTGACTTGAGAGTT-----------------AGA
i canFam3.chr31             I 114 C 0
s dasNov3.JH578070            2414474  71 +   3081153 aatgtctatcaaatga--tagagacaacaccttagttaatgttgaaacatggaggtttt--------------------------------------------------agttaagattt-----------------caa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=50515.000000
s hg38.chr21_GL383579v2_alt    123806 6 +    201197 aaaaag
s panTro5.chr21               8742659 6 +  33445071 aaaaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281771 6 +  46275980 aaaaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264339 6 -  13858734 aaaaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288638 6 +  32716333 aaaaag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702129 6 - 185818997 aaaaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336823 6 - 192294377 taaaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972908 6 -  30496662 aaaaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485236 6 +  21915920 aaaaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986266 6 -  90373283 aaaaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491852 6 +   7543664 aaaaag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261800 6 -  13750039 aaaaag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521159 6 +  50472720 TAAAAG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13945529 4 -  14377064 --aaag
i cebCap1.NW_016107322v1    C 0 I 2
s otoGar3.GL873528           24885276 5 -  38779656 aaaaa-
i otoGar3.GL873528          I 94 C 0
s canFam3.chr31              18063487 6 +  39895921 AAAAAA
i canFam3.chr31             C 0 I 10
s dasNov3.JH578070            2414545 6 +   3081153 gaaaat
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e saiBol1.JH378168            8701736 282 +  13128814 I

a score=1506256.000000
s hg38.chr21_GL383579v2_alt    123812 158 +    201197 aaaatggtgtcttccctccttacttctattcaacctgacaccagatgacctaatcagatcaggacagtga----gaatatgaaataCACTACAATAATGAACTGGGAAAACAAAAAAG-AAATAC-------ACTGCTACTAGTGCTGATACCAAGTTTGCTGCTTAAAT
s panTro5.chr21               8742665 158 +  33445071 aaaatggtgtcttccctccttacttctattcaacctgacaccagatgacctaatcagagcaggacaatga----gaatatgaaataCACTACAATAATGAACTGGGAAAACAAAAAAG-AAATAC-------ACTGCTACTAGTGCTGATACCAAGTTTGCTGCTTAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281777 158 +  46275980 aaaatggtgtcttccctccttacttctattcaacctgacaccagatgacctaatcagagcaggacaatga----gaatatgaaataCACTACAATAATGAACTGGGAAAACAAAAAAG-AAATAC-------ACTGCTACTAGTGCTGATACCAAGTTTGCTGCTTAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264345 158 -  13858734 aaaatggtgtcttccctccttacttctattcaacctgacaccagatgacctaatcagagcaggacagtga----gaatatgaaatacactagaataatgaactgggaaaacaaaaaag-aaatac-------actgctactaGTGCTGATACCAAGTTTGCTGCTTAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288644 158 +  32716333 aaaatggtgtcttccttccttacttctattcaacctgacaccagatgacctaatcagagcaggacagtga----gaatatgaaatacactacaataatgaactgggaaaacaaaaaag-aaatac-------actgccactaGTGCTGATACCAAGTTTGCTGCTTAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702135 158 - 185818997 aaaatggcgtcttgcctcctcacttctattcaacctgatgtcagatgacctaatcagagcaggacagtga----gaatatgaaatgcactataataatgaactgggaaaacaaaaaag-aaataa-------actgctactacagctgataCCAAGTTTGCTACTTAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336829 158 - 192294377 aaaatggcgtcttgccttctcacttctattcaacctgatgtcagatgacctaatcagagcaggacagtga----gaatatgaaatgcactataataatgaactgggaaaacaaaaaag-aaataa-------actgctactacagctgataCCAAGTTTGCTGCTTAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4972914 158 -  30496662 aaaatggcgtcttgcctcctcacttctattcaacctgatgtcagatgacctaatcagagcaggacagtga----gaatatgaaatgcactataataatgaactgggaaaacaaaaaag-aaataa-------actgctactacagctgataCCAAGTTTGCTGCTTAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485242 158 +  21915920 aaaatggcgtcttgcctcctcacttctattcaacctgatgtcaaatgacctaatcagagcaggacagtga----gaatatgaaatgcactataataatgaactgggaaaacaaaaaag-aaataa-------actgctactacagctgataCCAAGTTTGCTGCTTAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986272 158 -  90373283 aaaatggcgtcttgcctcctcacttctattcaacctggtgtcagatgacctaatcagagcaggacagtga----gaatatgaaatgcgctataataatgaactgggaaaacaaaaaag-aaataa-------actgctactaCAGCTGATACCAAGTTTGCTGCTTAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3491858 158 +   7543664 aaaatggcgtcttgcctcctcacttctattcaacctgatgtcagatggcctaatcagagcaggacagtga----gaatatgaaatgcactataataatgaactgggaaaacaaaaaag-aaataa-------actgctactacagctgataCCAAGTTTGCTGCTTAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261806 158 -  13750039 aaaatgaagtcttccctcctcacttctattcaacctgatgtcagttgacctaatcagagcaggacagtga----gaatatgaaatgcattataatagtgaactgggaaaacagaaaag-aaataa-------actgctactaccgctgatACCAAGTTCGCTGCTTAAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521165 153 +  50472720 AAAGTGATGCCTTCCCTCCTCCCTTCTGTTCAGTCTGATAACTGACGATCTAATCAGAGCAGGACAGTGA----GAATATGAAA----CTATAATAATGAACTGGAAAAACAAAAATG-AAATAA-------ACTGCTACTAGCACTGATACCAAGTT-GCTTCTCAAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702018 153 +  13128814 AAAATGACGTCTTCCCTCCTCCCTTCTGTTCAATCTAAGAACTGACGACCTAATCAGAGCAGGACATTGA----GAATATGAAA----TTATAATAATGAACTGGAAAAACAAAAACG-AAATAA-------ACTACTACTAGCACTGATACCAAGTT-GCTTCTTAAAT
i saiBol1.JH378168          I 282 C 0
s cebCap1.NW_016107322v1     13945535 153 -  14377064 aaaatgatgccttttctcctcccttctattcaatctgataattgacgacctaatcagagcaggacaacga----gaatatgaaa----ctataataatgaactggaaaaacaaaaacc-aaaTAA-------ACTGCTACTAGCACTGATACCAAGTT-GCTTCTTACAT
i cebCap1.NW_016107322v1    I 2 C 0
s otoGar3.GL873528           24885281 163 -  38779656 aTAATTATGTTCTCTCTCTCCAATTCTATTAAGCCTGACACCAGATGATCTACTCAGAGCATGATGGTGAATATACATATTAAATAAACTATAGTGATGAAATAAGAAAGCCAAAAAGTAACTAC-------TATACTACTATCATCAACCCCAtctttctttctttctt
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18063503 164 +  39895921 GAAATGAATACCCTTCTCTCTGCCACTATTCAACATGAACCCACTTGACCTCATCAGAGCAGGACAATGA----GAATATGAAAGAAGTTACAATAATGGAACAGGAAAACAAAAAGG-AGAAAAATAAAGCACTATTAATATCACTAGCACTGACTTTGTATAATAAT-
i canFam3.chr31             I 10 C 0
s dasNov3.JH578070            2414551 146 +   3081153 aaaatgatgttgcccatctcta-ttttattcaaaatgatacaaaataatctagactaggcaggacacaga----gaatatggaataaaacataaagatgaattg----------aaaa-aaagac-------actgctattatCTCTGACACTAACTTTGCTTCTTAAT-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23719470 1003 +  47401472 I
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=13365.000000
s hg38.chr21_GL383579v2_alt    123970 1 +    201197 T
s panTro5.chr21               8742823 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281935 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264503 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288802 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702293 1 - 185818997 T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336987 1 - 192294377 T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973072 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485400 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986430 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492016 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261964 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521318 1 +  50472720 T
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702171 1 +  13128814 T
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945688 1 -  14377064 C
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23720473 1 +  47401472 T
i micMur3.chr31             I 1003 C 0
s otoGar3.GL873528           24885444 1 -  38779656 t
i otoGar3.GL873528          C 0 I 200
s canFam3.chr31              18063667 1 +  39895921 T
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414697 1 +   3081153 T
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I

a score=196096.000000
s hg38.chr21_GL383579v2_alt    123971 17 +    201197 TTCCAATCTTAGTAATC
s panTro5.chr21               8742824 17 +  33445071 TTCCAGTCTTAATAATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281936 17 +  46275980 TTCCAGTCTTAATAATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264504 17 -  13858734 TTCCAATCTTAGTAATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288803 17 +  32716333 TTCCAATCTTAGTAATC
i nomLeu3.chr25             C 0 M 100
s rheMac8.chr3              160702294 17 - 185818997 TTCCAATCTTAGTAATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167336988 17 - 192294377 TTCCAATCTTAGTAATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973073 17 -  30496662 TTCCAATCTTAGTAATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485401 17 +  21915920 TTCCAATCTTAGTAATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986431 17 -  90373283 TTCCAATCTTAGTAATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492017 17 +   7543664 TTCCAATCTTAGTAATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261965 17 -  13750039 TTCCAATTTTAGTAATC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521319 17 +  50472720 TTCCAATAGTAGTAATC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702172 17 +  13128814 TTCCAATCGTGGTAATC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945689 17 -  14377064 TTTCAATTGTGGTAATC
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23720474 17 +  47401472 TTCCAATCTTAGTTATC
i micMur3.chr31             C 0 C 0
s canFam3.chr31              18063668 17 +  39895921 TTCCAACTTTAGTGATC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414698 17 +   3081153 TTCCAGTTTTAGCAATT
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e otoGar3.GL873528           24885445 200 -  38779656 I

a score=158350.000000
s hg38.chr21_GL383579v2_alt    123988 17 +    201197 AGACTGTGTTCAATAGT
s panTro5.chr21               8742841 17 +  33445071 AGACTGTGTTCAATAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281953 17 +  46275980 AGACTGTGTTCAATAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264521 17 -  13858734 AGACTGTGTTCAGTAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160702311 17 - 185818997 AGACTGTGTTCAATAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337005 17 - 192294377 AGACTGTGTTCAATAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973090 17 -  30496662 AGACTGTGTTCAATAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485418 17 +  21915920 AGAGTGTGTTCAATAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986448 17 -  90373283 AGACTGTGTTCAATAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492034 17 +   7543664 AGACTGTGTTCAATAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261982 17 -  13750039 AGACTGTGTTCAATAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521336 17 +  50472720 AGAATGTGTTCAATAGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702189 17 +  13128814 AGAATGTGTTCAATATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945706 17 -  14377064 AGAATGTGTTCAATATT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23720491 17 +  47401472 AGGTTGTGTTCAATAGT
i micMur3.chr31             C 0 I 48
s canFam3.chr31              18063685 17 +  39895921 AGATTGTGTCAAATAGT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414715 16 +   3081153 GTGTTTTGTTCAAGCT-
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e otoGar3.GL873528           24885445 200 -  38779656 I
e nomLeu3.chr25               9288820 100 +  32716333 M

a score=3455.000000
s hg38.chr21_GL383579v2_alt    124005 1 +    201197 G
s panTro5.chr21               8742858 1 +  33445071 G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281970 1 +  46275980 G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264538 1 -  13858734 G
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160702328 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337022 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973107 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485435 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986465 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492051 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5261999 1 -  13750039 A
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8702206 1 +  13128814 A
i saiBol1.JH378168          C 0 C 0
s canFam3.chr31              18063702 1 +  39895921 A
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414731 1 +   3081153 A
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23720508 48 +  47401472 I
e cebCap1.NW_016107322v1     13945723 0 -  14377064 C
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e calJac3.chr21              26521353 0 +  50472720 C
e otoGar3.GL873528           24885445 200 -  38779656 I
e nomLeu3.chr25               9288820 100 +  32716333 M

a score=57212.000000
s hg38.chr21_GL383579v2_alt    124006 8 +    201197 TACATGTT
s panTro5.chr21               8742859 8 +  33445071 TACATGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281971 8 +  46275980 TTCATGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264539 8 -  13858734 TACATGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160702329 8 - 185818997 AACATGCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337023 8 - 192294377 AACATGCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973108 8 -  30496662 AACATGCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485436 8 +  21915920 AACATGCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986466 8 -  90373283 AACATGCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492052 8 +   7543664 AACATGCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262000 8 -  13750039 AACATGCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521353 7 +  50472720 -ACATGTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702207 8 +  13128814 CACACGTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945723 7 -  14377064 -ACACGTT
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24885645 8 -  38779656 tatatggg
i otoGar3.GL873528          I 200 C 0
s canFam3.chr31              18063703 8 +  39895921 TGCATGGT
i canFam3.chr31             C 0 I 3
s dasNov3.JH578070            2414732 8 +   3081153 CACATGTT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23720508 48 +  47401472 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e nomLeu3.chr25               9288820 100 +  32716333 M

a score=193073.000000
s hg38.chr21_GL383579v2_alt    124014 37 +    201197 ---CTTAGC----AG----------------------------------TTTTTT-------TTTAAATATCTGGATGTTG---CAGG
s panTro5.chr21               8742867 37 +  33445071 ---CTTAGC----AG----------------------------------TTTTTT-------AAAAAATATCTGGATGTTG---CAGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22281979 37 +  46275980 ---CTTAGC----AG----------------------------------TTTTTT-------AAAAAATATCTGGATGTTG---CAGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264547 36 -  13858734 ---CTTAGC----AG----------------------------------TTTTTT--------TTAAATATCTGGATGTTG---CAGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288920 44 +  32716333 ---CTTAGC----AG----------------------------------tttttttttttttttttAATATCTGGATGTTG---TAGG
i nomLeu3.chr25             M 100 C 0
s rheMac8.chr3              160702337 33 - 185818997 ---CTCAGC----TC----------------------------------TTTTTT-----------AATATCTGGATGTTG---CAGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337031 33 - 192294377 ---CTCAGC----TC----------------------------------TTTTTT-----------AATATCTGGATGTTG---CAGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973116 33 -  30496662 ---CTCAGC----TC----------------------------------TTTTTT-----------AATATCTGGATGTTG---CAGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485444 33 +  21915920 ---CTCAGC----TC----------------------------------CTTTTT-----------AATATCTGGATGTTG---CAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986474 33 -  90373283 ---CTCAGC----TC----------------------------------TTTTTT-----------AATATCTGGATGTTG---CAGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492060 33 +   7543664 ---CTCAGC----TC----------------------------------TTTTTT-----------AATATCTAGATGTTG---CAGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262008 37 -  13750039 ---CTCAGCAGTTTC----------------------------------TTTTTT-----------AATATCTGGATGTTG---CAGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521360 35 +  50472720 ---TGTAGC----A------------------------------------TTTTT-------AAAAAATACCTCCATGTTG---CAGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702215 37 +  13128814 ---CGTAGC----AT----------------------------------TTTTTT-------TTTAAACACCTCGATGCTG---CAGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945730 37 -  14377064 ---AGTAGC----AT----------------------------------TTTTTT-------TTTAAATACCCCGATGCTG---CAGG
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24885653 71 -  38779656 ---attagc----accctactccttgagccacaggcaccgcccCCTGATTTCTTT-------TTAAAATACCTTGATGTTC---CAGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18063714 39 +  39895921 ---GCCAGA----TT----------------------------------CCTTTT--------TAAAATAATTATGCATTATCTCCGA
i canFam3.chr31             I 3 C 0
s dasNov3.JH578070            2414740 39 +   3081153 CTTGTCAAA----TT----------------------------------TCTTTT--------TAAAATAGCTGACTGTTT---CAGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23720508 48 +  47401472 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I

a score=1331218.000000
s hg38.chr21_GL383579v2_alt    124051 110 +    201197 CTAGTAGTTATGGGGATAGCTAGGGTGAGGGCTGATGTCTGTGTCCACTGGAGGGTTAAATTTT-AGAATTTGGCTTATTTCCATTGGTTTCTGTCTTAAATAGGATGGAT
s panTro5.chr21               8742904 110 +  33445071 CTAGTAGTTATGGGGATAGCTAGGGTGAGGGCTGATGTCTGTGTCCACTGGAGGGTTAAATTTT-AGAATTTGGCTTATTTCCATTGGTTTCTGTCTTAAATAGGATGGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282016 110 +  46275980 CTAGTAGTTATGGGGATAGCTAGGGTGAGGGCTGATGTCTGTGTCCACTGGAGGGTTAAATTTT-AGAATTTGGCTTATTTCCATTGGTTTCTGTCTTAAATAGGATGGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264583 110 -  13858734 CTAGTAGTTATGGGGATAGCTAGGGTGAGGGCTGATGTCTGTGTCCACTGGAGGGTTAAATTTT-AGAATTTGGCTTATTTCCATTGGTTTCTGTCTTAAATAGGATGGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9288964 110 +  32716333 CTAGTAGTTATGGGGATAGCTAGGGCGAGGGCTGATGTCTGTGTCCATATGAGGGTTAAATTTT-AGAATTTGGTTCATTTCCATTGGTTTCTGTCTTAAATGGGATGGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702370 110 - 185818997 CTAGTAGTCATGGAGATAGCTAGGGTGAAGGCTGATGTCTGTGTCCATTGGAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTAAAATAGGATGGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337064 110 - 192294377 GTAGTAGTCATGGAGATAGCTAGGGTGAAGGCTGATGTCTGTGTCCATTGGAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTACAATAGGATGGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973149 110 -  30496662 CTAGTAGTCATGGAGATAGCTAGGGTGAAGGCTGATGTCTGTGTCCTTTGGAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTACAATAGGATGGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485477 110 +  21915920 CTAGTAGTCATGGAGATAGCTAGGGTGAGGGCTGATGTCTGTGTCCATTGAAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTAAAATAGGATGGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986507 110 -  90373283 CTAGTAGTCATGGAGATAGCTAGGGTGAAGGCTGATGTCTGTGTCCATTGGAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTAAAATAGGATGGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492093 110 +   7543664 CTAGTAGTCATGGAGATAGCTAGGGTGAAGGCTGATGTCCGTGTCCATTGGAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTAAAATAGGATGGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262045 110 -  13750039 CTAGTAGTCATGGAGATAGCTAGGGTGAGGGCTGATGTCTGTGTCCATTGGAGGGTTAAATTTT-AGAATTTGGCTCATATCCATTGGTTTCTGTCTAAAATAGGATGGAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521395 110 +  50472720 CTAGTAGTCATGGGGATAGTTAGGGTGAGGGCTGATACCTTTGGCAATTGGGGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCTGTCTAAAATAGGATGAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702252 110 +  13128814 CTAGTAGTCATGGGGATAGATAGGGTGAGGGCTGATGCCTGTGGCCATTGGAGGGTTAAATTTT-AGAATTTGGCTCATTTCCATTGGTTTCGGTCTGAAATAGGATGGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945767 110 -  14377064 CTAGTAGTCACGGGGATAGATAGGGTGAGGACTGATGCTTGTGGCCATTGGAGGGTTAAATTTT-AGAATTTGGCACATTTCCATTGGTTTCGGTATAAAATAGGATGGAT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23720556 110 +  47401472 CTAGTAATCATGGAAATAGCTAGGGTGATGTCTAATGTCTATGGCCATTGAAGAATTAAAATTT-AAATTTTGGCTCATTTCCATTGGTCTCTGTCTAAAATAGGATGGAT
i micMur3.chr31             I 48 I 116
s otoGar3.GL873528           24885724 102 -  38779656 CTAGTAATCAAGGAATTAGATAGGGCGATGGGCAATGCCTATAGCTATGGAAAGGTTAAAATTT---------GGTCATTTCCATTGGTCTCTGTCTACAATAAGATGGAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18063753 102 +  39895921 CTAGTAAACATGGAGAT---------GAAGGTTGATGTCTGTGGTCTTTGAGGGGTTAAAAATCAAGAATTTGGCCCATTTTCATTGATCTCTGTCCAAAATAGGATAGCC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2414779 103 +   3081153 CCAGTAAATACAACAATATCTAGGGTTAGAGCTGATGCCAGTGGCCTTCAAAGAGTTAAAATCT-AGAATTTGGCTCAT-TCCATT------TGACTAAAATAGGATGAAT
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=86696.000000
s hg38.chr21_GL383579v2_alt    124161 8 +    201197 ATTCTTTT-
s panTro5.chr21               8743014 8 +  33445071 ATTCTTTT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282126 8 +  46275980 ATTCTTTT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264693 8 -  13858734 ATTCTTTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289074 8 +  32716333 ATTCTTTT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702480 8 - 185818997 GTTCTTTT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337174 8 - 192294377 GTTCTTTT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973259 8 -  30496662 GTTCTTTT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485587 8 +  21915920 GTTCTTTT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986617 8 -  90373283 GTTCTTTT-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492203 8 +   7543664 GTTCTTTT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262155 8 -  13750039 GTTCTTTG-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521505 8 +  50472720 ATTCTTTT-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702362 8 +  13128814 ATTCTTTT-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945877 8 -  14377064 ATTCTTTT-
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24885826 8 -  38779656 ATTCTTTT-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18063855 8 +  39895921 GTTCTTTT-
i canFam3.chr31             C 0 I 202
s dasNov3.JH578070            2414882 9 +   3081153 GCTCTATTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23720666 116 +  47401472 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I

a score=1012138.000000
s hg38.chr21_GL383579v2_alt    124169  98 +    201197 GTGAAG---TTTTTTCCTAGGAGATTTTGTTGCTAT----CTCAGTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAAATACCCTTACAGGAA----TTTTACAAG
s panTro5.chr21               8743022  98 +  33445071 GTGAAG---TTTTTTCCTAGGAGATTTTGTTGCTAT----CTCAGTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAAATACCCTTACAGGAA----TTTTACAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282134  98 +  46275980 GTGAAG---TTTTTTCCTAGGAGATTTTGTTGCTAT----CTCAGTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAAATACCCTTACAGGAA----TTTTACAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264701  98 -  13858734 GTGAAG---TTTTTTCCTAGGAGATTTTGTTGCTAT----CTCAGTGTCAAAGATTGTTAAACTGTGACCAGCTGCCTGAAATACCCTTACAGGAA----TTTTACAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289082  98 +  32716333 GTGAAG---TTTTTTCCCAGGAGATTTTTTTGCTAC----CTCACTGTCAAAGATTGTTAAACTATGACCAGCTGCTTGAAATACCCTTACAGGAA----TTTTACAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702488  98 - 185818997 GTGAAG---TTTTTTCCTGGGAGATCTTGTTGCTGC----ATCACTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAGATACCCTTACAGGAA----TTTTACAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337182  98 - 192294377 GTGAAG---TTTTTTCCTGGGAGATCTTGTTGCTGC----ATCACTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAGATACCCTTACAGGAA----TTTTACAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973267  98 -  30496662 GTGAAG---TTTTTTCCTGGGAGATCTTGTTGCTGC----ATCACTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAGATACCCTTACAGGAA----TTTTACAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485595  98 +  21915920 GTGAAG---TTTTTTCCTGGGAGATCTTGTTGCTGC----ATCACTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAGATACCCTTACGGGAA----TTTTACAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986625  98 -  90373283 GTGAAG---TTTTTTCCTGGGAGATCTGGTTGCTGC----ATCACTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAGATACCCTTACAGGAA----TTTTACAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492211  98 +   7543664 GTGAAG---TTTTTTCCTAGGAGATCTTGTTGCTGC----ATTACTGTCAAAGATTGTTAAACTGTGACCAGCTGCCTGAGATACCCTTACAGGAA----TTTTACAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262163  98 -  13750039 GTGAAG---TTTTTTCCTGGGAGACCTTGTTGCTGC----ATCACTGTCAAAGATTGTTAAACTATGACCAGCTGCCTGAGATACTCTTACAGGAA----TTTTACAAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521513  98 +  50472720 GTGAAT---TTTTTTCCTACAAGATTTTATTGCTGC----ATCACTGTCAGAGATTGTTAAACTGTGACCAGCTGCCTGCAATCCCCTTACAGAAA----TTTTACAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702370  98 +  13128814 GTGAAA---TTTTTTCCTACGAGGTTTTGTTGCTGC----ATCATTGTCAAAGACTGTTAAACTATGACCAGCTACCTGCAATTCCCTTACAGGAA----TTTTACAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945885  97 -  14377064 G-GAAA---TTTTTTCCTACGAGGTTTTGTTGCTGC----ATCACTGTCAAAGACTGTTAAACTATGACCAGCTACCTGCAATTCCCTTACAGGAA----TTTTACAAA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24885834 104 -  38779656 TGGAAAAATATTTTTCCCAGAAGATTTTGCTCCTAT----ATTACTGTAAAGGATTGTTACACTATGACCAGCTTCCTGCAATTCCCTTATAAGAATTTTTTTTAAAA-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18064065 101 +  39895921 GTAAAG---TTTTCTTTTAGCAAATTTTGCTGCCATGTCACTCACTGTCTGAGGTGGTTATACTGTGACCAA-TGCCTGCCATTTCTTTATAGAAG----GTGGGTGAG
i canFam3.chr31             I 202 I 12
s dasNov3.JH578070            2414891  98 +   3081153 GCAAAA---TTTTCTCCTAGGATATTTTGCTATTAT----ATCACTATCAGAGGTGGTTACACTGTGACAAGATTCCGGCAATTCCCTTAAAAGAA----TAAAAGAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23720666 116 +  47401472 I
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=4655836.000000
s hg38.chr21_GL383579v2_alt    124267 399 +    201197 ----GCTTGAAATAAAGAAAACTGAAGCCAAATTTTCAATAAGTCTTTTACACTTAATTATTGAGACAACTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCAGAAACCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGATAAACTGTGGACAAAACCTTCTCAAGCAAAGTACATTGAAACAGAGAGCATTA-CTGTTTTGATGAAATATTCCTTATCAG--AAAAATGTCACAGTTCCTTGAATAAGGCTGTATTGTTAAAGTGAAAGGAAGTCCTTTCTATTGAAAACACCCACACTCTCTGGTTTAATGGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGATCTATTAAGAATAGGGCCCTT----TAT
s panTro5.chr21               8743120 397 +  33445071 ----GCTTGAAATAAAGAAAACTGAAGCCAAATTTTCAAT--GTCTTTTACACTTAATTATTGAGACAACTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCAGAAACCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGAAAAACTGTGGACAAAACCTTCTCAAGCAAAGTACATTGAAACAGAGAGCATTA-CTGTTTTGATGAAATATTCCTTATCAG--AAAAATGTCACAGTTCCCTGAATAAGGCTGTATTGTTAAAGTGAAAGGAAGTCCTTTCTATTGAAAACACCCACACTCTCTGGTTTAATGGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGCTCTATTAGGAATAGGGCCCTT----TAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282232 397 +  46275980 ----GCTTGAAATAAAGAAAACTGAAGCCAAATTTTCAAT--GTCTTTTACACTTAATTATTGAGACAACTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCAGAAACCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGACAAACTGTGGACAAAACCTTCTCAAGCAAAGTACATTGAAACAGAGAGCATTA-CTGTTTTGATGAAATATTCCTTATCAG--AAAAATGTCACAGTTCCTTGAATAAGGCTGTATTGTTAAAGTGAAAGGAAGTCCTTTCTATTGAAAACACCCACACTCTCTGGTTTAATGGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGCTCTATTAGGAATAGGGCCCTT----TAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8264799 398 -  13858734 ----GCTTGAAATAAAGAAAACTGAAGCCAAATTTTCAATAAGTCTTTTACACTTAATTATTGAGACAACTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTTAGAAACCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATGGATAAACTGTGGACAAAACCTTCTCAAGCAAAGTACATTGAAACAGAGAGCATTA-CTGTTTTGATGAAATATTCCTTATCAG--AAAAATGTCACAGTTCCTTGAATAAGGCTGTATTGTTAAAGTGAAA-GAAGTCCTTTCTGTTGAAAACACCCACACTCTCTGGTTTAACGGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGCTCTATTAGGAATAGGGCCCTT----TAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289180 399 +  32716333 ----GCTTGAAATAAAGAAAACTGAAGCTAAATTTTCAATAAGTCTTTTACACTTAATTATTGAGACAACTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCAGAAACCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATGGATAAACTGCGGACAAAACCTTCTCAAGCAAAGTATATTGAAACAGACAGCATTA-TTGTTTTGATGAAATATTCCTTATCAG--AAAAAAGTCACAGTTCCTTGAATAAGGCTGTATTGTTAAAGTGAAAGGAAGTGCTTTCTACTGAAAACACCCACACTGTCTGGTTTAATGGCTACTTGACCACTACACATA---ATGCAAAAACATCAGTATGGCTCTATTAAGAATAGGGGACTT----TAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702586 395 - 185818997 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAGT-TTTTACACTTAATTATTGAGACACCTGACATAGTTAAAGAGGACAAAAAAAA-ATTAAGCACTCGAAAAGCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGATAAACTGCACACAAAACCTTCTCAAGCAAAGTATACTGAAACAGACAGCATTA-TTGTTTTGATGAGATATTCCTTAACAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGTTAAAGTGAAAGGAAGTGCTTTCTATTGAAAACACCCACACTA--TGGTTTAATAGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGTTCTATCAAGAATAGGGCCCTT----TAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337280 383 - 192294377 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAGT-TTTTACACTTAATTATTGAGACACCTGACATAGTTAAAGAGGACAAGAAAAATATTAAGCACTCGAAAAGCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGATAAA-------------CTTCTCAAGCAAAGTATACTGAAACAGACAGCATTA-TTGTTTTGATGAGATATTCCTTAACAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGTTAAAGTGAAAGGAAGTGCTTTCTATTGAAAATGCCCACACTA--TGGTTTAATAGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGTTCTATCAAGAATAGGGCCCTT----TAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973365 396 -  30496662 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAGT-TTTTACACTTAATTATTGAGACACCTGACATAGTTAAAGAGGACAAAAAAAATATTAAGCACTCGAAAAGCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGATAAACTGCACACAAAACCTTCTCAAGCAAAGTATACTGAAACAGACAGCATTA-TTGTTTTGATGAGATATTCCTTAACAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGTTAAAGTGAAAGGAAGTGCTTTCTATTGAAAACGCCCACACTA--TGGTTTAATAGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGTTCTATCAAGAATAGGGCCCTT----TAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13485693 396 +  21915920 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAGT-TTTTACACTTAATTATTGAGACACCTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCGGAAAGCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGATAAACTGCACACAAAACCTTCTCAAGCAAAGTATACTGAAACAGACAGCATTA-TTGTTTTGATGAGATATTCCTTATCAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGGTAAAGTGAAAGGAAGTACTTTCTATTGAAAACACCCACACTG--AGGTTTAATAGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGTTCTATCAAGAATAGGGCCCTT----TAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19986723 395 -  90373283 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAGT-TTTTACACTTAATTATTGAGACACCTGACATAGTTAAAGAGGAC-AAAAAAATATTAAGCACTCGGAAAGCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGAGAAACTGCACACAAAACCTTCTCAAGCAAAGTATACTGAAACAGACAGCAATA-TTGTTTTGATGAGATATTCCTTATCAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGGTAAAGTGAAAGGAAGTACTTTCTATTGAAAACACCCACACTG--TGGTTTAATAGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGATTCTATCAAGAATAGGGCCCTT----TAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492309 396 +   7543664 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAGT-TTTTACACTTAATTATTGAGACACATGACATAGTCAAAGAGGACAAAAAAAATATTAAGCACTCGGAAAGCTTA---ATGTTG-AAATAATTTATTTTTATAAGACCTACATGTCTGTAGAATAGATGAACTGCACACAAAACCTTCTCAAGCAAAGTATACTGAAACAGACAGCATTA-TTGTTTTGATGAGATATTCCTTATCAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGGTAAAGTGAAAGGAAGTACTTTCTATTGAAAACACCCACACTG--TGGTTTAATAGCTACTTGACCACTATGCATA---ATGCAAAAACATCAGTATGGTTCTATCAAGAATAGGGCCCTT----TAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262261 392 -  13750039 ----ACTTGAAATAAAGAAAATTGAAGCTGAATTTTCAATAAAT-TTTTACACTTAATTATTGAGACACCTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTTGGAAAGCTTA---ATGTTG-AAATA----ATTTTTATAAGACCTACATGTCTGTAGAATAGATAAACTGCACACAAAACCTTCTCAAGCAAAGTATACTGAAACAGAGAGCATTA-TTGTTTTGATGAAATATTCCTTATCAG--AAAAAAGTCACAGTTCCTTGAATAAGGTTATATTGTTAAAGTGAAAGGAAGTGCTTTCTATTGAAAACACCCACACTG--TGGTTTAATAGCTACTTGACCACTATACATA---ATGCAAAAACATCAGTATGGCTCTATCAAGAATAGGGCCCTT----TAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26521611 392 +  50472720 ----GCTTGAAAT----AAAACTGAAACCAAATTTCCAGT-AGTCTTTTACACTTAGTTATTGAGATACCTGACATAGTTTCAGAAGACAAAAGAATTATTAAGCATTCAAAAACCTTA---ATGTTG-aaataatttatttttataaaaGCTACATGTCTATAGAATAGAT-AAACTCAGACAAAACCTTC----ACAAAGTATACTGAAACTGAGAGCATTA-TTGTTTTGATGAAATATTCCCTATCAG--AAAAGAGTCACAGCTCCTTGAATAAGGTTGTATTGTTAAAGTGAAAGG-AGTGCTTTCTATTGAAAACACCAAAACTCTCCAGTTTAATGGCTACTTGACCGCTATGCATA---ATGCAAAAACATCAGTGTCACTCTATTAAAAATAAGGCCCTTTATGTAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702468 394 +  13128814 ----GCTTAAAATAAAGAAAACTGAAATCAAATTTCTAATAAGTCTTTTACACTTAGTTATTGAGACACCTGACACAGTTACAGAGGACAAAAGAAATATTAAGCATTCAAAAACCTTA---ATGTTG-AAATAATTTGTTTTTATGAAAGCTACATGTCTATAGAATA----AACTGCAGACAAAACCTTC----ACAAAATATACTGAAATAGAGAGCATTA-TTGTTTTGATGAAATATTCCTTATCAG--AAAAGAGTCACAGTTTCTTGAATAAGGTTGTATTGTTAAAGTGAAAGG-AGTGCTTTCTATTGAAAACACCAAAACTCTCCAGTTTAATGGCTACTTGACCGCTATGCATA---ATGCAAAAACATCAGTATGGCTCTATTAATAATAGGTTCCTTTATGTAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13945982 398 -  14377064 ----GCTTAAAATAAAGAAAACTTAAACCAAATTTCCAACAAGTCTTTTACACTTAGTTATTGAGACACCTGACATAATTACAGAGGACAAAATAAATATTAAGCATTCAAAAATCTTA---ATGTTG-AAATAATTTATTTTTAGAAAAGTTACATGTCTATACAATA----AACTGCAGACAAAACCTTCACAAACAAAGTACACTGAAACAGAGAGCATTA-TTGTTTTGATGAAATATTCCTTATCAG--GAAAGAGTCACAGTTCCTTGAATAAGGTTGTATTGTTAAAGTGAAAGG-AGTACTTTCTGTTGAAAACACCAAAACTCTCCAGTTTAATGGCTACTTGACCGCTATGCATA---ATGCAAAAACATCAGTATGGCTCTATTAAAAATAGGGCCCTTTATGTAT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23720782 395 +  47401472 ----GCTTAAAATAAAGAAAGCTGAAGTCAAATTCCCAGTAAGTCTTTTATGCTTTGTTATTGAAACACCTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCAGAAACCTTA---ATGTTG-AAATAATTTATTTTTATAAGAGCTACATGTCTATAGAATAGATAAACTGCAGCCAAAACCTTCACAAGCAAAGTACACTGAAACAGAGAGCATTA-TTGTTTTGATGAAATATTCCTTATCAG--AAAAGAGTCACAGTTCTACAAATAAGGTTGTATTGTTAAAGATAAAGGAAGCACTTTCTATTCAGAGAGCTGACACTGTCTGGACTAATGGCTGTT----TGTAATACATA---ATGCAAAAACATCAGTATGAATCTATTAAAATTAGAGCCCTT----TAT
i micMur3.chr31             I 116 I 333
s otoGar3.GL873528           24885938 382 -  38779656 ----TCTTTTAATAAAGAAAACTGAAGCCAAATTCCCAGTAAGTCTCTTACGCTTTGTTATTAAAACACCTGACATAGTTAAAGAGGACAAAAGAAATATTAAGCACTCAGAAATCTTA---ATGTTG-AAATAATTTATTTTTATAAGAGCTATATGTCAATAGA----ATAAACTGCAGCCAGAACCTTCACAAGCCAAGTATACTGAAACAGAGAGTGTTA-TTGTTTTGATGAAATATTCCTTATCAGAAAAAAGAGTCACAGTTCTGTGAAAAAGGTTGTGTTGTTAAAGATAAAGGAAGTAGTTTCTATTCAGATGGCTCACACTGTCAGGACTAATGGATGTTTGACTGTAATACATGGTCGTACAAAAACATCAGTAT------------------GCCCTT----TAT
i otoGar3.GL873528          C 0 I 4
s canFam3.chr31              18064178 401 +  39895921 ----GCATGAAATAAAGAAAACAGAAGCCAAATTTCCAAAAAGTCTCTTACACTTTGTTATGGAAACACTTGACATATTTAAAGAGGACAAAAGAAATATCAAGCACTCAGAGATCTTATTTATGTTGCAAATAATTTATTTTTATAAGAACTATATGTCAATAGAATAGATAGACTGCAGCTAAAACCTCCACAAAGAAAGCACACTGAAATAGAGAGGATTA-TTATTTTGATGAAATATTCCCTATAAG--GAAA--GTCACAGTTCTGTGCAGAAGGTTATACTGTTAAAGATAAAGGAGGTGCTGTCTACTCCGATTGCCGACACTGCCTGGACTAAGGGTTATTTGGCCATAATATGTA---ATGCAAAAACATTAGTTAGGCTCTTTTAAAAATAGGACCCTT----TAT
i canFam3.chr31             I 12 I 4
s dasNov3.JH578070            2414989 407 +   3081153 AGTATCTTTATATAAATAATAATAAAGCTGAATTTCCAATAGGTATTACACATTTTGCTATTGAAACACATGACATAGTTAAAGAGGATAAAAGAAATATCAAGCAGTCAAAAATCTCATTTAAGCTG-AGAAAAATTCATTTTATAAGAGCTACATGTTTATAGAATAGAAAAAGTGAAGCTGAAACCTTCACAAGCAAAGCACGCTGAAATGGAGAGCATTATTTGTGGTGGTGAAATATTCCACATCAG--AACAGAAGTAGTGTTCTCTGAATAAGGCTGTATTTTTAAAGATAAAGGAAATACTTTCTACGCAGGCAGGCCACATTGTCTGAACTAATGGCTGTTTAACCATAATGCATA---ATGCAAAACCATAAGTATAGCTCTATTTATAACAAAGCCATT----TAG
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=275289.000000
s hg38.chr21_GL383579v2_alt    124666 29 +    201197 ----AATTCAGTCATATT--AAATAGAGAAATTAG
s panTro5.chr21               8743517 29 +  33445071 ----AATTCAGTCATATT--AAATAGAGAAATTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282629 29 +  46275980 ----AATTCAGTCATATT--AAATAGAGAAATTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265197 25 -  13858734 ----AATTCAGTCATAT------TAGAGAAATTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289579 24 +  32716333 ----ACTTCAGTCATATT--AAATAGAG-----AG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160702981 29 - 185818997 ----ACTTCAGTCATATT--AAATAGAGAAATTAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337663 29 - 192294377 ----ACTTCAGTCATATT--AAATAGAGAAATTAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973761 29 -  30496662 ----ACTTCAGTCATATT--AAATAGAGAAATTAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486089 29 +  21915920 ----ACTTCAGTCATATC--AAATAGAGAAATTAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987118 29 -  90373283 ----ACTTCAATCATATT--AAATAGAGAAATTAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492705 29 +   7543664 ----ACTTCAGTCACATC--AAATAGAGAAATTAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262653 29 -  13750039 ----ACCTCAGTTATATT--AAATAGAGAAATTAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522003 29 +  50472720 ----CCTTCAGTCACATT--AAATAGAGAAAGTAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702862 29 +  13128814 ----ACTTCAGTCACATT--AAATAGAGAAAGTAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946380 29 -  14377064 ----ACTTCAGTCACATT--AAATAGAGAAAATAG
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24886324 29 -  38779656 ----TCTTCAGTTTCATT--AAATGTAAAAATTAG
i otoGar3.GL873528          I 4 C 0
s canFam3.chr31              18064583 29 +  39895921 ----ACTTCAGTTTCATT--AAAAATAAATACTAG
i canFam3.chr31             I 4 I 177
s dasNov3.JH578070            2415396 35 +   3081153 ATAGGCTTCAGTCTCATTAAAAATAAAAAAAATAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I

a score=1206237.000000
s hg38.chr21_GL383579v2_alt    124695 123 +    201197 AACTgaaataatgctggaaggaagtaagaagacataggttgagtcctaattctcctgtttag-------------------gatttacgt--------actttcaattccttactct-aagtttAGGGATAACAATTCTTCAGTTGCCTTC
s panTro5.chr21               8743546 123 +  33445071 AACTgaaataatgctggaaggaagtaagaagacataggttgagtcctaattctcctgtttag-------------------gatttacgt--------actttcaattccttactct-aagtttAGGGATAACAATTCTTCAGTTGCCTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282658 123 +  46275980 AACTgaaataatgctggaaggaagtaagaagacataggttgagtcctaattctcctgtttaG-------------------GATTTACAT--------ACTTTCAATTCCTTACTCT-AAGTTTAGGGATAACAATTCTTCAGTTGCCTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265222 123 -  13858734 AACTGAAATAATATTGCAATGAAGTAAGAAGACATAGGTTGAGTCCTAATTCTCCTGTTTAG-------------------GATTTACAT--------ACTTTCAATTCCTTACTCT-AAGTTTAGGGATAACAATTCTTCAGTTGCCTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289603 123 +  32716333 AACTgaaataatactggaatgaagtaagaagacataggttgagtcctaattctcctgtttaG-------------------GATTTACAT--------ACTTTCAATTTCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGTTGCCTTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703010 123 - 185818997 AACTGAAATAATATTGGAATGAAATAAGAAGACATAGGTTGAGTCCTAATTCTTCTGTTTAA-------------------GATTTACAT--------ACTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGCTGCCTTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337692 123 - 192294377 AACTGAAATAATATTGGAATGAAATAAGAAGACATAGGTTGAGTCCTAATTCTTCTGTTTAA-------------------GATTTACAT--------ACTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGCTGCCTTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973790 123 -  30496662 AACTGAAATAATATTGGAATGAAATAAGAAGACATAGGTTGAGTCCTAATTCTTCTGTTTAA-------------------GATTTACAT--------ACTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGCTGCCTTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486118 123 +  21915920 AACTGAAATAATATTAGAATGAAATAAGAAGACATAGGTTGAGTCCTAATTCTTCTGTTTAA-------------------GATTTACAT--------ACTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGCTGCCTTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987147 123 -  90373283 AACTGAAATAATATTGGAATGAAATAAGAAGACATAGGTTGAGTCCTAATTCTTCTGTTTAA-------------------GATTTCCAT--------ACTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGCTGCCTTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492734 123 +   7543664 AACTGAAATAATATTGGAATGAAATAAGAAGACATAGGTTGAGTCCTAATTCTTCTGTTTAA-------------------GATTTACAT--------ACTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATTCTTCAGCTGCCTTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262682 123 -  13750039 AACTGAAATAATATTGGAATGAAATAAGAATACATAGGTTGAGTCATAATTCTTCTGTTTAG-------------------GATTTACAT--------GCTTTCAATTCCTTCCTCT-AAGTTTAGGGATAACAATGCTTCAGCTGCCTTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522032 130 +  50472720 AACTGAAATAATATTGGAAGGAAGTAAGAAGATATAGGTTGAGTCCTAATTTGCTTGTTGAGTAATTAT------------GATTTACAT--------ACTTTCAGTTTCTTCCTCT-AAGTTTAGGGATAGCAATTCTTCAGTTGCCTTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8702891 130 +  13128814 AACTGAAATAATATTGGAATGAAGTAAGAAGATATAGGTTGAGTCCTAATTTGTTTGTTCAGTAATTAT------------GATTTACAT--------ACTTTCAGTTTCTTCCTCT-AAGTTTAGGAATAACAATTCTTCAGTTGCCTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946409 130 -  14377064 AACTgaaataatattggaatgaagtaagaagatataggttgagtcctgatttgcttgtttagtaagtat------------gatttacaa--------actttcagtttcttcctct-aggtttagggataacaattcttcagttgcctTC
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24886353 137 -  38779656 AATTTAAATAATAGTGAGAtgaagt-agaaggcccaagctgagttctaatttttctgcttagtagtcat------------gattcacatcatttctgactctcatttgccttctct-gagcttagggataacagttcttcaattggctac
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2415431 150 +   3081153 ATCTATaataacattggaatggtg-aagaagaaccaggttgagtcctaattctcttgcttatttatcatgagatatcatgcaattcatataatacctgagtctcagttcttgcctctaaaatTTGTTGGCAACTGTTCTTCAATCACTTAC
i dasNov3.JH578070          C 0 I 1
e micMur3.chr31              23721177 333 +  47401472 I
e canFam3.chr31              18064612 177 +  39895921 I
e aotNan1.NW_018487195v1      9169203  38 -   9889416 I

a score=581971.000000
s hg38.chr21_GL383579v2_alt    124818 72 +    201197 ATGTGTAATAATTATACCAAT-AAAAACTAATACAGGTCAATTTTTAAAGTTTATTGAATCCCTGCATA-AAAA
s panTro5.chr21               8743669 72 +  33445071 ATGTGTAATAATTATACCAAT-AAAAACTAATACAGGTCAATTTTTAAAGTTTATTGAATCCCTGCATA-AAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282781 72 +  46275980 ATGTGTAATAATTATACCAAT-AAAAACTAATACAGGTCAATTTTTAAAGTTTATTGAATCCCTGCATA-AAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265345 71 -  13858734 ATGTGTAATAATTATACCAAT--AAAACTAATACAAGTCAATTTTTAAAGTTTATTGAATCCCTGCATA-AAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289726 72 +  32716333 ATTTGTGATAATTATACCAAT-AAAAACTAACACAGGACAATTTTTAAAGTTTATCGAATCCCTGCATA-AAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703133 72 - 185818997 ATGTGTCATAATTATACCAAT-AAAAACTAATACATGACAATCTTTGAAGCTTATCAAATCCTTGCATA-AAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337815 72 - 192294377 ATGTGTCATAATTATACCAAT-AAAAACTAATACATGACAATCTTTGAAGCTTATCAAATCCTTGCATA-AAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973913 72 -  30496662 ATGTGTCATAATTATACCAAT-AAAAACTAATACATGACAATCTTTGAAGCTTATCAAATCCTTGCATA-AAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486241 72 +  21915920 ATGTATCATAATTATACCAAT-AAAAACTAATACATGACAATTTTTGAAGCTTATCAAATCACTGTATA-AAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987270 72 -  90373283 ATGTGTCATAATTATACCAAT-AAAAACTAATACATGACAATTTTTGAAGCTTATCAAATCCTTGTATA-AAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492857 72 +   7543664 ATGTGTCATAATTATACCAAT-AAAAACTAATACATGACAATTTTTGAAGCTTATCAAATCACTGTATA-AAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262805 72 -  13750039 ATGTGTCATTATTATACCAAT-AAAAACTAATATATGACAATTTTTGAAGTTTATCAAATCCCTGTATA-AAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522162 72 +  50472720 ATGTGTAATAACTATACTGat-aaaaacaaatttattacaattttttaaatttattGAATCCCTATATT-AAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703021 73 +  13128814 ACGTGTAATAACTCTACCGataaaaaactaatatattacaattttttaaatttattGAATCCCTGTATT-AAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946539 73 -  14377064 ACGTGTAATAACTATACCGAT-AAAAACTAATATATTATAATTTTTTAAATTTATTGAATCCCTGTATTAAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24886490 71 -  38779656 ctGTGTAA-AATTATACCAAT-AAAAACTAATACATTATAATTTTTAAAGTTCATTGATTCCCTGTACA-AAAA
i otoGar3.GL873528          C 0 I 79
s canFam3.chr31              18064789 72 +  39895921 aaataaaataaaaataaaaat-aaaaaaaaataaaTACTAGGACTTaaataatattggaatggtgtaag-aaga
i canFam3.chr31             I 177 C 0
s dasNov3.JH578070            2415582 43 +   3081153 ----------------------AAAGGGAAGTGTTTTACAAATGGCCA----TATTTTATTATTGCAAA-----
i dasNov3.JH578070          I 1 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I

a score=30765.000000
s hg38.chr21_GL383579v2_alt    124890 3 +    201197 ACT
s panTro5.chr21               8743741 3 +  33445071 ACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282853 3 +  46275980 ACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265416 3 -  13858734 ACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289798 3 +  32716333 ACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703205 3 - 185818997 ACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337887 3 - 192294377 ACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973985 3 -  30496662 ACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486313 3 +  21915920 ACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987342 3 -  90373283 ACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492929 3 +   7543664 ACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262877 3 -  13750039 ACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522234 3 +  50472720 ACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703094 3 +  13128814 ACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946612 3 -  14377064 ACT
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18064861 3 +  39895921 cct
i canFam3.chr31             C 0 I 326
e micMur3.chr31              23721177 333 +  47401472 I
e dasNov3.JH578070            2415625 0 +   3081153 C
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e otoGar3.GL873528           24886561 79 -  38779656 I

a score=191872.000000
s hg38.chr21_GL383579v2_alt    124893 28 +    201197 CTTGTCACCTGGAATTACAGAACttttt
s panTro5.chr21               8743744 28 +  33445071 CTTGTCACCTGGAATTACAGAACttttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282856 28 +  46275980 CTTGTCACCTGGAATTACAGAACttttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265419 27 -  13858734 CTTGTCACCTGGAATTACAGAATTTTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289801 27 +  32716333 GTTGTCACCTGGAATTACAGAGTTTTT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703208 27 - 185818997 GTTGTCACCTGGAATTACAGAGGTTTT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337890 27 - 192294377 GTTGTCACCTGGAATTACAGAGGTTTT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4973988 27 -  30496662 GTTGTCACCTGGAATTACAGAGGTTTT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486316 27 +  21915920 GTTGTCACCTGGAATTACAGATATTTT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987345 27 -  90373283 GTTGTCACCTGGAATTACAGAGATTTG-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492932 27 +   7543664 GTTGTCACCTGGAATTACAGATATTTT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262880 26 -  13750039 GTTGTCACCTGGAATTACAGAGATTT--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522237 28 +  50472720 GTTGTCACCTGGGATTACTGAGTTTTAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703097 28 +  13128814 GTTGTCACCTGGGAtttctgagtttttt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946615 28 -  14377064 GTTGTCACCTGGGATTACTGAGtttttt
i cebCap1.NW_016107322v1    C 0 C 0
s dasNov3.JH578070            2415625 26 +   3081153 --TATTACATGTAATAATGAAACTTTTT
i dasNov3.JH578070          C 0 I 107
e micMur3.chr31              23721177 333 +  47401472 I
e canFam3.chr31              18064864 326 +  39895921 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e otoGar3.GL873528           24886561 79 -  38779656 I

a score=379817.000000
s hg38.chr21_GL383579v2_alt    124921 65 +    201197 tat-------ttttt---tttgtttttATtcagtccaaagcatatattaggggaact-----tagatagacagg-ggtctt
s panTro5.chr21               8743772 68 +  33445071 tat-------tttttatttttgtttttATtcagtccaaagcatatattaggggaaca-----tagatagacagg-ggtctt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282884 68 +  46275980 tat-------tttttatttttgtttttATtcagtccaaagcatatattaggggaact-----tagatagacagg-ggtctt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265446 52 -  13858734 ----------------------TTTTTATtcagtccaaagcatatatta-gggaact-----tagatagacaga-ggtctt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289828 71 +  32716333 --T-------GTTTTGTTTTTGTTTTTATtcagtccaaagcatatatttggggaactttatctagatagagagg-gggctt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703235 61 - 185818997 ----------GTTTTGTTTTTGTTTTTATttagtccaaagcatatattaggggaact---------tagagagg-gggctc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167337917 61 - 192294377 ----------GTTTTGTTTTTGTTTTTATttagtccaaagcatatattaggggaact---------tagagagg-gggctc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974015 61 -  30496662 ----------GTTTTGTTTTTGTTTTTATttagtccaaagcatatattaggggaact---------tagagagg-gggctc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486343 61 +  21915920 ----------GTTTTGTTTTGTGTTTTATttagtccaaagcatgtattaggggaact---------tagagagg-gggctt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987372 61 -  90373283 ----------TTTTTGTTTTTGTTTTTATttagtccaaagcatatattaggggaact---------tagagagg-gggctt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3492959 61 +   7543664 ----------GTTTTGTGTTGTGTTTTATttagtccaaagcatgtattaggggaact---------tagagagg-gggctt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5262906 61 -  13750039 ----------GTTTTGTTTTTGTTTTTATttagtccaaagcatttattaggggaatt---------tagagagg-gggctt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522265 70 +  50472720 GTTGCTTCTG-----GTTTTTGTTTTTATtcagtccaaagaatttattaggggtact-----tacatagagaggaggcct-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703125 74 +  13128814 gttacttctgtttttgtttttgtttttattcagtccaaagaatttattagggatact-----tacatagagagg-ggtct-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946643 74 -  14377064 gttgcttctgtttttgtttttgtttttATtcagtccaaagcatttattaggggaact-----tacatagagagg-ggtct-
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e dasNov3.JH578070            2415651 107 +   3081153 I
e canFam3.chr31              18064864 326 +  39895921 I
e aotNan1.NW_018487195v1      9169203 38 -   9889416 I
e otoGar3.GL873528           24886561 79 -  38779656 I

a score=1010870.000000
s hg38.chr21_GL383579v2_alt    124986 121 +    201197 tagcctccttgtgatgaagagtgagaaaagagatgttccatccaggtatgtccctaatgggctagctaggttatatgagggttgcaggaatttggctcaggggtcatggataatttctat---------------------------g---------------------------
s panTro5.chr21               8743840 121 +  33445071 tagcctccttgtgatgaagagtgagaaaagagatgttccatccaggtatgtccctaatgggctagctaggttatatgagggttgcaggaatttggctcaggggtcatggataatttctat---------------------------g---------------------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22282952 121 +  46275980 tagcctccttgtgatgaagagtgagaaaagagatgttccatccaggtatgtccctaatgggctagctaggttatatgagggttgcaggaatttggctcaggggtcatggataatttctat---------------------------g---------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265498 120 -  13858734 tagcctccttgtgatgaagagtgagaaaagagatgttccatccaggtatgtccctaatgggctagctaggttatatgagggttg-aggaatttggctcaggggtcatggataatttcaat---------------------------g---------------------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9289899 141 +  32716333 tagcctccttgtgatgaagagtgagaaaagagatgttccatccaggtatttctccaatggggca-------tacctgagggtttaaggaatttggctcaagggtcatggataatttctttgtgtttagcaacgtggtcaatttctcag---------------------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703296 120 - 185818997 tagcctccttgtgatg-agagtgagataagagatgctccatccaggtatgtccttaatgggctagctgggttacaggagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i rheMac8.chr3              C 0 I 27
s macFas5.chr3              167337978 120 - 192294377 tagcctccttgtgatg-agagtgagataagagatgctccatccaggtatgtccttaatgggctagctgggttacaggagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i macFas5.chr3              C 0 I 27
s macNem1.NW_012015021v1      4974076 120 -  30496662 tagcctccttgtgatg-agagtgagataagagatgctccatccaggtatgtccttaatgggctagctgggttacaggagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i macNem1.NW_012015021v1    C 0 I 27
s cerAty1.NW_012002954v1     13486404 121 +  21915920 tagcctccttgtgatgaagagtgagataagagatgctccatccaggtatgtccttaatgggctagctgggttataggagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i cerAty1.NW_012002954v1    C 0 I 27
s chlSab2.chr2               19987433 121 -  90373283 tagcctcgttgtgatgaagagtgagataagagatgctccatcctggtatgtccttaatgggctagctgggttatatgagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i chlSab2.chr2              C 0 I 27
s manLeu1.NW_012103476v1      3493020 121 +   7543664 tagcctccttgtgatgaagagtgagataagagatgctccatccaggtatgtccttaatgggctagctgggttataggagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i manLeu1.NW_012103476v1    C 0 I 1882
s colAng1.NW_012120598v1      5262967 121 -  13750039 tagccttcttgtgatgaagagtgagataagagatgttccatccaggtatgtccttaatgggctagctgggttatgtgagggtttaaggaatttggctcaggggtcagggataatttctat---------------------------g---------------------------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522335 145 +  50472720 tagcctccttctgatgaagagtgag--aaaagatgttcgacccacgtatgtccctaatgggctagctgggttatatgatggtataaggaatttgcctca-gggtctgggatagtttctat---------------------------gcgtttagcaacgtggtcaatttctcag
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703199 143 +  13128814 tagcttccttctgatgaaga--cag--aaaagatgttccatccaggtatgtccctaatgggctagctgggttatatgagggtttacggaatttggctca-gggtctgggatagattttat---------------------------gtgtttagcaacatggtcaatttctcag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946717 144 -  14377064 tagcctccttctgatgaagagtaag--aaaagatgttccatccaggtatgtccctaatgggctagctgggttatatgagggtttaaggaatttggctca-gggtctgggatag-ttttat---------------------------gtgtttggcaacgtggtcaatttctcag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169241 145 -   9889416 tagcatccttctgatgaagagtgag--aaaagatgttccatccaggtatgtccctaatgggctaactgggttatatgagggtttaagaaatttggctca-gggtctgggataatttctat---------------------------gtgtttagcaacatgttcaatttctcag
i aotNan1.NW_018487195v1    I 38 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e dasNov3.JH578070            2415651 107 +   3081153 I
e canFam3.chr31              18064864 326 +  39895921 I
e otoGar3.GL873528           24886561  79 -  38779656 I

a score=10639.000000
s hg38.chr21_GL383579v2_alt    125107 2 +    201197 ag
s panTro5.chr21               8743961 2 +  33445071 ag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283073 2 +  46275980 ag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265618 2 -  13858734 ag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290040 2 +  32716333 tg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703443 2 - 185818997 tg
i rheMac8.chr3              I 27 C 0
s macFas5.chr3              167338125 2 - 192294377 tg
i macFas5.chr3              I 27 C 0
s macNem1.NW_012015021v1      4974223 2 -  30496662 tg
i macNem1.NW_012015021v1    I 27 C 0
s cerAty1.NW_012002954v1     13486552 2 +  21915920 tg
i cerAty1.NW_012002954v1    I 27 C 0
s chlSab2.chr2               19987581 2 -  90373283 tg
i chlSab2.chr2              I 27 C 0
s colAng1.NW_012120598v1      5263088 2 -  13750039 tg
i colAng1.NW_012120598v1    C 0 I 27
s calJac3.chr21              26522480 2 +  50472720 tg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703342 2 +  13128814 tg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946861 2 -  14377064 tg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169386 2 -   9889416 tg
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e dasNov3.JH578070            2415651 107 +   3081153 I
e canFam3.chr31              18064864 326 +  39895921 I
e otoGar3.GL873528           24886561 79 -  38779656 I
e manLeu1.NW_012103476v1      3493141 1882 +   7543664 I

a score=1055262.000000
s hg38.chr21_GL383579v2_alt    125109 119 +    201197 cttcaagcaacaatctcaaaagc-tttatcagtgcctggaaatgtttaagaccccatcttgggttcaagtctgcagggggaaatatgctgctgtccaggttacagagtggtcagggcact
s panTro5.chr21               8743963 119 +  33445071 cttcaagcaacaatctcaaaagc-tttatcagtgcctggaaatgtttaagaccccatcttaggttcaagtctgcagggggaaatatgctgctgtccaggttacagagtggtcagggcact
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283075 119 +  46275980 cttcaagcaacaatctcaaaagc-tttatcagtgcctggaaatgtttaagaccccatcttaggttcaagtctgcagggggaaatatgctgctgtccaggttacagagtggtcagggcgct
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265620 118 -  13858734 cttcaagcaacaatctcaaaagc-tttatcagtgcct-gaaatgttcaagaccccattttgggttcaagtctgcagggggaaatatgctgctgtccaggttacagagtggtcagggcact
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290042 120 +  32716333 cttcaaacaacaatctcaaaaacttttatcagtgcctgggaatgttcaagacctcatcttgggttcaagcctgcagggggaaatatgcagccatccaggttgcagagtggtcagggcact
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703445 118 - 185818997 cttcaagcaacaacctcaaaa-c-tttatcagtgcctgggaatgttcaagaccccatcttgggttcaagtttgcagggggaaatatgcaactgtccaggttacagagtggtcagggaact
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338127 118 - 192294377 cttcaagcaacaacctcaaaa-c-tttatcagtgcctgggaatgttcaagaccccatcttgggttcaagtttgcagggggaaatatgcaactgtccaggttacagagtggtcagggaact
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974225 118 -  30496662 cttcaagaaacaacctcaaaa-c-tttatcagtgcctgggaatgttcaagaccccatcttgggttcaagtttgcagggggaaatatgcaactgtccaggttacagagtggtcagggaact
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486554 117 +  21915920 cttcaagcaacaacctcaaaa-c-tttatcagtgcctgggaatgttcaagaccccat-ttgggttcaagcttgcagggggaaatatgcagctgtgcaggttacagagtagtcagggcact
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987583 118 -  90373283 cttcaagcaacaacctcaaaa-c-tttttcagtgcttgggaatgttcaagaccccatcttgggttcatgtttgcagggggaaatatgcagctgtccaagttacagagtggtcagggcact
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495023 118 +   7543664 cttcaagcaacaacctcaaaa-c-tttatcagtgcctgggaatgttcaagaccccatcttgggttcaagcttgcagggggaaatatgcagctgtgcaggttacacagtagtcagggcact
i manLeu1.NW_012103476v1    I 1882 C 0
s colAng1.NW_012120598v1      5263117 118 -  13750039 cttcaagcaacaacctcaaaa-c-tttatcagtgcctgggaatgttcaataccccatcctgggttcaagcctgcagggggaaatacgcagctgtccaggttacagagtggtcagggaact
i colAng1.NW_012120598v1    I 27 C 0
s calJac3.chr21              26522482 119 +  50472720 cttcaagcaagaacctcaaaaac-tttattagtgtctgagaatattcaagaccccagcttgggttcaagtctgcagggggaaatatgcagctgtccaggttacacagtggtaacggcact
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703344 100 +  13128814 cttcaagcaagaacatcagaaac-attattagtgtctgggaata-------------------ttcaagtctgcagggggaaatatgcagctgttcagattaaacagtggtcagggcact
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946863 119 -  14377064 cttcaagcaagaacgtcagaaat-attattagtgtctgggaatattcaagaccccagtttgggttcaagtctgcagggggaaatatgcagctgttcagattaaacagtggtcagggcact
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169388 119 -   9889416 cttcaagcaagaacctcaaaacc-tttattagtgtctgggaatattcaagaccccagcttgggttcaaatctgcagggtgaaatatgcagctgttcagattaaacagtggtcagggcact
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e dasNov3.JH578070            2415651 107 +   3081153 I
e canFam3.chr31              18064864 326 +  39895921 I
e otoGar3.GL873528           24886561  79 -  38779656 I

a score=119863.000000
s hg38.chr21_GL383579v2_alt    125228 11 +    201197 ctgtttcttgg
s panTro5.chr21               8744082 11 +  33445071 ctgtttcttgg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283194 11 +  46275980 ctgtttcttgg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265738 11 -  13858734 ctgtttcttgg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290162 11 +  32716333 ctgtttcttgg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703563 11 - 185818997 ctgtttcttgg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338245 11 - 192294377 ctgtttcttgg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974343 11 -  30496662 ctgtttcttgg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486671 11 +  21915920 ctgtttcttgg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987701 11 -  90373283 ctgtttcttgg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495141 11 +   7543664 ctgtttcttgg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263235 11 -  13750039 ctgtttcttgg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522601 11 +  50472720 ctgtttcttgg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703444  9 +  13128814 c--tttcttgg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946982 11 -  14377064 ctgtttcttgg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169507 10 -   9889416 c-gtttcttgg
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2415758 11 +   3081153 CTGTTTTTTGA
i dasNov3.JH578070          I 107 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e canFam3.chr31              18064864 326 +  39895921 I
e otoGar3.GL873528           24886561 79 -  38779656 I

a score=139649.000000
s hg38.chr21_GL383579v2_alt    125239 12 +    201197 ---------tcaggTTTTACA
s panTro5.chr21               8744093 12 +  33445071 ---------tcaggTTTTACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283205 12 +  46275980 ---------tcaggTTTTACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265749 12 -  13858734 ---------tcaggTTTTACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290173 12 +  32716333 ---------tcaggTTTTACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703574 12 - 185818997 ---------tcaggTTTTACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338256 12 - 192294377 ---------tcaggTTTTACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974354 12 -  30496662 ---------ccaggTTTTACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486682 12 +  21915920 ---------tcaggCTTTATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987712 12 -  90373283 ---------tcaggTTTTACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495152 12 +   7543664 ---------tcaggTTTTATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263246 12 -  13750039 ---------tcaggTTTTACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522612 12 +  50472720 ---------tcagATTTTACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703453 12 +  13128814 ---------tcagATTTTACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13946993 12 -  14377064 ---------tcagATTTTACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169517 12 -   9889416 ---------tcagATTTTACA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18065190 12 +  39895921 ---------ATAGGTTCTATA
i canFam3.chr31             I 326 C 0
s dasNov3.JH578070            2415769 21 +   3081153 TCTAGAATTGCAGGTTTTACA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23721177 333 +  47401472 I
e otoGar3.GL873528           24886561 79 -  38779656 I

a score=322394.000000
s hg38.chr21_GL383579v2_alt    125251 32 +    201197 ATAAAACTTAAATGACACAAAATAATATAATT
s panTro5.chr21               8744105 32 +  33445071 ATAAAACTTAAATGACACAAAATAATATAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283217 32 +  46275980 ATAAAACTTAAATGACACAAAATAATATAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265761 32 -  13858734 ATAAAACTTAAATGATACAAAATACTATAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290185 32 +  32716333 ATAAAACTTAAATGTTGCAAAATAATATAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703586 32 - 185818997 ATAAAACTTAAATGATACAAAATAATATAATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338268 32 - 192294377 ATAAAACTTAAATGATACAAAATAATATAATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974366 32 -  30496662 ATAAAACTTAAATGATACAAAATAATATAATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486694 32 +  21915920 ATAAAACTTAAATGATGCAAAATAATATAATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987724 32 -  90373283 ATAAAACTTAAATGATACAAAATAATATAATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495164 32 +   7543664 ATAAAACTTAAATGATGCAAAATAATATAATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263258 32 -  13750039 ATAAAACTTAAATGATACAAAATAATATAATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522624 32 +  50472720 ATAAAACTTAAATAATACAAAATAACATAATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703465 32 +  13128814 ATAAAACTTAAAAAATACAAAATAATATAATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947005 32 -  14377064 ATAAAACTTAAATAATACAAAATAACATAATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169529 32 -   9889416 ATAAAACTTAAATAATACAAAATAACATAATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24886640 25 -  38779656 ACAGGACTAAATTGAGATA-------TTAATT
i otoGar3.GL873528          I 79 C 0
s canFam3.chr31              18065202 23 +  39895921 ATAAAATCTAAATGATACAATAG---------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2415790 23 +   3081153 -------TTAAGTTATAAATGATGGCATAG--
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23721177 333 +  47401472 I

a score=946582.000000
s hg38.chr21_GL383579v2_alt    125283 79 +    201197 GGTCAAATTGAGAATTTTATTTCAAATTCATTTTCTTTCCTGCAATAACGTAGCAATAGTCTTACCATGGTTGTAACAA
s panTro5.chr21               8744137 79 +  33445071 GGTCAAATTGAGAATTTTATTTCAAATTCATTTTCTTTCCTGCAATAACGTAGCAATAGTCTTACCATGGTTGTAACAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283249 79 +  46275980 GGTCAAATTGAGAATTTTATTTCAAATTCATTTTCTTTCCTGCAATAACGTAGCAATAGTCTTACCATGGTTGTAACAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265793 79 -  13858734 GGTCAAATTGAGAATTTTATTTCAAATTCATTTTCTTTCCTGCAATGACGTAGCAATAGTCTTATCATGGTTGTAACAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290217 79 +  32716333 GATCAAATTGAGAATTTTATTTCAAATTCATTTTCTTTCCTGCAATGACATAGCAATAGTCTTATCATGGTTGTAACAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703618 79 - 185818997 GGTCAAATTGAGAATTTTATTTTAAATTCATTTTCTTTCCTGCAATGACATAGTAATAATCTTATCAAGGTGGTAACAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338300 79 - 192294377 GGTCAAATTGAGAATTTTATTTTAAATTCATTTTCTTTCCTGCAATGACATAGTAATAATCTTATCAAGGTGGTAACAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974398 79 -  30496662 GGTCAAATTGAGAATTTTATTTTAAATTCATTTTCTTTCCTGCAATGACATAGTAATAATCTTATCAAGGTGGTAACAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486726 79 +  21915920 GGTCAAACTGAGAATTTGATTTTAAATTCATTTTCTTTCCTGCAATGACATAATAATAGTCTTATCAAGGTGGTAACAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987756 79 -  90373283 GGTCAAATTGAGAATTTTATTTTAAATTCATTTTCTTTCCTGCAATGACATAGTAATAGTCTTATCAAGGTGGTAACAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495196 79 +   7543664 GGTCAAACTGATAATTTTATTTTAAATTCATTTTCTTTCCTGCAATGACATAATAATAGTCTTATCAAGGTGGTAACAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263290 79 -  13750039 GGTCAAATTGAGAATTTTATTTTAAATTCATTTTCTTTCCTGCAATGACATAGTAATAGTCTTATCAAGGTGGTAACAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522656 78 +  50472720 GGTCAAATTGAGAATTTTGTTTCAAATTCATTTTCTTTCTTGCAATGATATGGCAATAGTCTTATTAT-GTTGTAATGa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703497 78 +  13128814 GGTCAAATTGAGAATTTTGTTTCAAATTCATTTTCTTTCTTTCAACAGTATAGCAATACTCTTATTAT-GTTGTAACAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947037 78 -  14377064 TGTCAAATTGAGAATTTTGCTTCAAATTCATTTTCTTTCCTGCAATAATATAGCAATACTCTTATTAT-GTTGTAACAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169561 72 -   9889416 GGTCAAATTGAGAA------TTCAAATTCATTTTCTTTCATGTAATGATATAGCAATACTCTTATTAT-TTTGTAACAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23721510 79 +  47401472 GGTTAAATTGAGAAATTTATTTCAAATTCATTTTATTTCTTACAATTACATAGCACTAGTCATAACATGGTTGTAACAA
i micMur3.chr31             I 333 I 961
s otoGar3.GL873528           24886665 55 -  38779656 ---------------------TCAAATTC---TTTTTTCTTACAATCATGTGGCACAAGTCATAACATTGGGGTAATGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18065225 78 +  39895921 GGTCAAATCAAAAA-TTTATTGCAAATTCATTTTCTCTCTTACAATGATATAGCACTAGTCTTAACAAGATTGCAACAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2415813 79 +   3081153 GGTGAAATTGAGAAATTTATTTCAAATTTATTTTATTTCTTGCAATCATTTAACCCTAGTCTTAACATGGTTGTTAAAA
i dasNov3.JH578070          C 0 C 0

a score=2033840.000000
s hg38.chr21_GL383579v2_alt    125362 209 +    201197 TAAATTAATATATTTTAATAATGTTAGGCAGCATTATT--TTGGCAGC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCataatat-------aaatacac------------------------------atatatgc--------catatataac-tacacatat-aatatacattaaacttatagtatata----------------------------taattttatattt---aACATAATG-----------------GACATACAGTTAACAT-T-ATATACAATTAAATT
s panTro5.chr21               8744216 209 +  33445071 TAAATTAATATATTTTAATAATGTTAGGCAGCATTATT--TTGGCAGC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCataatat-------aaatacac------------------------------atatatgc--------catatataac-tacgcatat-aatatacattaaacttatagtatata----------------------------taattttatattt---aACATAATG-----------------GACATACAGTTAACAT-T-ATATACAATTAAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283328 209 +  46275980 TAAATTAATATATTTTAATAATGTTAGGCAGCATTATT--TTGGCAGC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCataatat-------aaatacac------------------------------atatatgc--------catatataac-tacgcatat-aatatacattaaacttatagtatata----------------------------taattttatattt---aACATAATG-----------------GACATACAGTTAACAT-T-ATATACAATTAAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8265872 209 -  13858734 TAAATTAATATATTTTAATAATGTTAGGCAGCATTATT--TTGGCAGC-AAAATTGTGATTATCAATGAATAACTCTAATATCTGATGTCataatat-------aaatacac------------------------------atatatgc--------catatataac-tacgcatat-aatatccattaaacttatagtatcta----------------------------taatgttatattt---aACATAATG-----------------GACATACAGTTAACAT-T-ATATACAATTAAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290296 205 +  32716333 TAAATTAATATATTTTAATAATGTTAGGCAGCATTATT--TTGGCAGC-AAAATTGTGATTATCAATGAATAACTCTAATATCTGATGTCATAATTT-------TAat--ac------------------------------atatatgc--------catatataac-tacgcatat-aatatacattaaac--atagtatata----------------------------taatgttatattt---aACATAATG-----------------GACATACGATTAACAT-T-ATATACAATTAAATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703697 202 - 185818997 TAAATTAATGTATTTTAAGAATGTTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCACAGTAT-------AAATACAC------------------------------ATATATGC--------CATTTATAAA-TGCCTATAT-AATGTACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATGAAATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338379 202 - 192294377 TAAATTAATGTATTTTAAGAATGTTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCACAGTAT-------AAATACAC------------------------------ATATATGC--------CATTTATAAA-TGCCTATAT-AATGTACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATGAAATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974477 202 -  30496662 TAAATTAATGTATTTTAAGAATGTTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCACAGTAT-------AAATACAC------------------------------ATATATGC--------CATTTATAAA-TGCCTATAT-AATGTACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATGAAATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13486805 202 +  21915920 TAAATTAATGTATTTTAATAATGTTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCACAATAT-------AAATACAC------------------------------ATATATGC--------CATTTATAAA-TGCCTATAT-AATGTACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATTAAATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19987835 202 -  90373283 TAAATTAATGTATTTTAAGAATATTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCACAGTAT-------AAATACAC------------------------------ATATATGC--------CATTTATAAA-TGCCTATAT-AATGTACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATTAAATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495275 202 +   7543664 TAAATTAATGTATTTTAATAATGTTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATCAATGAATAACTCTAATACCTGATGTCACAATAT-------AAATACAC------------------------------ATATATGC--------CATTTATAAA-TGCCTATAT-AATGTACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATTAAATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263369 202 -  13750039 TACATTAATATATTTTAATAATGTTAGGCAGCATTATT--TTGGCACC-AAATTTGTGATTATCAATTAACAACTCTAATACCTGATGTCACAATAT-------AAATACAA------------------------------ATATATGC--------CATTTATAAA-TACCTATAT-AATATACATTAAACTTA-------TA----------------------------TAATGTTATATTT---AACATAATG-----------------GATATACAATTAACAT-T-ATATACAATTAAATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522734 204 +  50472720 taaattaatatattttaataCCATTAGGCAGCATTATT--TTGACACC-ATAATGGTGATTATGAATGGATAAGTCTAATATCCCATGTCATAATGT-------AAATACAC------------------------------ATATATCC--------CATATGTAAA-TTTGTATGT-GATATACATTAAACACATAGtatata----------------------------taatattatattt---aaCATAATG-----------------CACATACAATTAACat-t-atata-----caatt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703575 219 +  13128814 TCAATTAATACATTTTAATACTATTAGGCAGCATTATT--TTGGCACCAAAAATTGGGATTATGAATGAATAAGTCTAACATCCCATGTCATAATGT-------AAATACAC------------------------------ACACACACACACACATCATATGTAAA-TTCATATATAAATGTACATTAAACTCATAGtatata----------------------------taatattatattt---aaCATAATG-----------------CACATGCAATTAACAT-T-ATATGAAATTAAATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947115 206 -  14377064 TAAATTAATACATTTTAATACCGTTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATTATGAATGAATAAGTCTAATATCCCATGTCATAATGT-------AAATATAC------------------------------ATATACAC--------CATATGTAAA-TTCATATAT-AATGTACATTAAACTC---GTATACA----------------------------TAATATTATATTT---AACATAATG-----------------CACATATAATCAACAT-T-ATATGCAATTAAATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169633 209 -   9889416 TAAATTAATATATTTTAATACCATTAGGCAGCATTATT--TTGGCACC-AAAATTGTGATGTTGAAGGAATAAGTCTAATATCCCATGTCATAATGT-------AAATACAC------------------------------ATATACAC--------CATATGTAAA-TTCATATAT-AATGTACATTAAACTCATAGTATATA----------------------------TAATATTATATTT---AACATAATG-----------------CACATATAATTAACAT-T-ATATACAATTAAATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24886720 181 -  38779656 --------TAAATATTAATACTTTCATGCAGTATTATT--TTGGCACC-CAGATTGTGACTATAAATGAATAACTC--ATAACTGATGTTTTAATGT-------AAATACAC------------------------------ACAA------------CGTATACAAA-TACATATAT--------GTTAAATGTACAGtatata----------------------------taa--ttatgttt---acta-----------------------acatataattaaaat-gaaaatgaaattaaatt
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18065303 286 +  39895921 TAAATTAATATGCTTCAGTATTCTTATGAAGCATTACTA-GTGGGACC-AAGAATGTGATTATCAGTGGATCACTCTAATGTCTGACGCTTTAAGAT-------AAACATACTGCCCCCCACATGTATAAGTAtatattacattatatac--------aatataacat-agcctatat-atattatataacatttataatatataattatagttatatataactatattatattcatactataatt---gatattatGAGTAACTAATATACAATAATATACAATTAAAATGC-ATATACAATTAAATT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2415892 222 +   3081153 CAAATTATTATATCTCCACACATTTATGAATCATGATTATTTGGAACC-AAGGGTGAAATTAACAAAGAATCACTCTATTATCTGATGCCTTAAGGCAGGGAGGAAATGTGT--------GCATGTGTGTGtaaa-------ataaatac--------tataaataaattgtatatat-aatatacaaca-------------ta----------------------------ttatgtaatatctaagaatattatg-----------------taaatg-aattataat-t-aaatg-aataaaatt
i dasNov3.JH578070          C 0 I 2448
e micMur3.chr31              23721589 961 +  47401472 I

a score=518920.000000
s hg38.chr21_GL383579v2_alt    125571 44 +    201197 ATTTTATTCAGAGAAAGTTATCTGATGAGCAATATATGatccat
s panTro5.chr21               8744425 44 +  33445071 ATTTTATTCAGAGAAAGTTATCTGATGAGCAATATATGatccat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283537 44 +  46275980 ATTTTATTCAGAGAAAGTTATCTGATGAGCAATATATGatccat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266081 44 -  13858734 ATTTTATTCAGAGAAAGTTATCTGATGAGCAATATATGatccat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290501 44 +  32716333 ACTTTATTCAGAGAAAGTTATCTGATGAGCAATATATGatccat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703899 44 - 185818997 ATTTTATTCAGAGAAATTTATCTGATGAGCAATATATGatccat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338581 44 - 192294377 ATTTTATTCAGAGAAATTTATCTGATGAGCAATATATGatccat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974679 44 -  30496662 ATTTTATTCAGAGAAATTTATCTGATGAGCAATATATGatccat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487007 44 +  21915920 ATTTTATTCAGAGAAATTTATCTGATGAGCAATATATGatccat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988037 44 -  90373283 ATTTTATTCAGAGAAATTTGTCTGATGAGCAATATATGatccat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495477 44 +   7543664 ATTTTATTCAGAGAAATTTATCTGATGAGCAATATATGattcat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263571 44 -  13750039 ATTTTATTCAGAGAAATTTATCTGATGAGCAATATATGatccat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522938 44 +  50472720 attttatttaaataaaCTTATCTGATGAGGAATATATGATCCAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703794 44 +  13128814 ATTTTGTTTAGATAAATTTATCTGATGAGGAATATGTGATCCAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947321 44 -  14377064 ATTTTGTTTAGATAAATTTATCTGATGAGGAATATATGATCCAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169842 44 -   9889416 ATTTTGTTTAGATAAATTTATCTGATGAGGAATATATGATCCAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24886901 44 -  38779656 attttaGTCCAAGAAATGTATCTGAGGAGCAATGTATGACCCAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18065589 44 +  39895921 GTTTTAATTAGAGAAATGTATTCAATCAGTAATACATGATCCAT
i canFam3.chr31             C 0 I 39
e micMur3.chr31              23721589 961 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I

a score=58703.000000
s hg38.chr21_GL383579v2_alt    125615 37 +    201197 ctatcgatccat-catccatccgtccatccatccatcc
s panTro5.chr21               8744469 37 +  33445071 ctatcgatccat-catccatccatccatccatccatcc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283581 37 +  46275980 ctatcgatccat-catccatccatccatccatccatcc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266125 38 -  13858734 ctatcgatccatccatccatccatccatccattcatcc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290545 14 +  32716333 ccatcgatccat------------------------cc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703943 26 - 185818997 ccatccattcat------------ccttccatctatcc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338625 26 - 192294377 ccatccattcat------------ccttccatccatcc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974723 26 -  30496662 ccatccattcat------------ccttccatccatcc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487051 26 +  21915920 ccatccattcat------------ctttccatccatcc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988081 26 -  90373283 ccatccattcat------------ccttccatccatcc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495521 26 +   7543664 ccatccattcat------------ctttccatccatcc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263615 26 -  13750039 ccatccattcat------------ccttccatccatcc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522982 12 +  50472720 GAATCCATCCAT--------------------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703838 11 +  13128814 GCTTTC-TCCAT--------------------------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947365 12 -  14377064 GCATTCATCCAT--------------------------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169886 12 -   9889416 GCATTCATCCAT--------------------------
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24886945  5 -  38779656 CC-------CAG--------------------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23721589 961 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18065633 39 +  39895921 I

a score=615120.000000
s hg38.chr21_GL383579v2_alt    125652  94 +    201197 atccatccatGCATT---------ATTCCAA----------ACTGATGAT---TAATTTT----TAAAAAGTCATTTATT--------------------GGGAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAAAGAAG
s panTro5.chr21               8744506  86 +  33445071 atccat--------T---------ATTCCAA----------ACTGATGAT---TATTTTT----TAAAAAGTCATTTATT--------------------GGGAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAAAGAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283618  86 +  46275980 atccat--------T---------ATTCCAA----------ACTGATGAT---TATTTTT----TAAAAAGTCATTTATT--------------------GGGAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAAAGAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266163  85 -  13858734 atccat--------T---------ATTCCAA----------ACTGATGA----TATTTTT----TAAAAAGTCATTTATT--------------------GGGAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAAAGAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290559  86 +  32716333 atccat--------T---------ATTCCAA----------ACTGATTAT---TATTTTT----TTAAAAGTCATTTATT--------------------GGGAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAAAGAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160703969  86 - 185818997 atccat--------T---------ATTCCAA----------AGTGATTAT---TTTTTTT----TTAAAAATTGTTTATT--------------------GGAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338651  87 - 192294377 atccat--------T---------ATTCCAA----------AGTGATTAT---TTTTTTT---AAAAAAAATTGTTTATT--------------------GGAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974749  85 -  30496662 atccat--------T---------ATTCCAA----------AGTGATTAT---TTTTTTT-----TTTAAATTGTTTATT--------------------GAAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487077  86 +  21915920 atccat--------T---------ATTCCAA----------AGTGATTAT---TATTTTT----TTTTTAATTGTTTATT--------------------GGAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988107  88 -  90373283 atTCAT--------T---------ATTCCAA----------AGTGATTATTA-TTTTTTT----AAAAAAATTGTTTATT--------------------GGAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495547  89 +   7543664 atccat--------t---------attcCAA----------AGTGATTATTATTTTTTTT----TAAAAAATTGTTTATT--------------------GGAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263641  87 -  13750039 atccat--------T---------ATTCCAA----------ACTGATTATTA-TATTTTT-----TAAAAGTTATTTATT--------------------GGAAATTTAGACAGGGG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAGAAGTTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26522994  77 +  50472720 --------------T---------ATTCCAA----------ATTG---AT---TATTATT----TTTAAAATCACTTATT--------------------GGGTATTTAGATGGGAG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAATGAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703849  80 +  13128814 --------------T---------ATTCCAA----------ATTGATTAT---TATTATT----TTTAAAAGCACTTATG--------------------GGACATTTAGACAGGAG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGGAAAATgaag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947377  80 -  14377064 --------------T---------ATTCCAA----------ACTGATTAT---TATTATT----TTTAAAATCACTTATT--------------------GGGCATTTAGACAGGAG-----------------------------------------------------------------------------------------------------------------------GAAGTAATTAAAGGAAAATgaac
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169898  79 -   9889416 --------------T---------ATTCCAA----------ATTGATTAT---TATTATT----TTTAAAATCACTTATT--------------------GGGCATTTAGACAGGAG-----------------------------------------------------------------------------------------------------------------------AAAGTAATTAAAGG-AAATGAAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24886950  86 -  38779656 ----GT--------T---------CCTCCAA----------ACTTATCAT---TAGGTGGAAAAAAAAAAGTCATTTACT--------------------GAGAATTCAGAAAGAAA-----------------------------------------------------------------------------------------------------------------------ACAAATTTTAAAACAAGAAAAGG
i otoGar3.GL873528          C 0 I 628
s canFam3.chr31              18065672 244 +  39895921 ATGCAT--------TTATGGAGGAATTTAAATGAGGAAAGCAGGGAAAAA---ttttttt----taaagatttatttattcatgagagacacagaaagagagagacacagacacaggcagaggcagaagcagactccctgcaaggagcccaatgtgggactccatcccatgaccccgggatcatgccctgagccgaagacagatgctcaaccatggagtcacccaggtgtcccAGAGAAATTTTTAAACAAAGGAAAAG
i canFam3.chr31             I 39 I 2
e micMur3.chr31              23721589 961 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I

a score=466121.000000
s hg38.chr21_GL383579v2_alt    125746 45 +    201197 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAAGAACATT
s panTro5.chr21               8744592 45 +  33445071 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAAGAACATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283704 45 +  46275980 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAAGAACATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266248 45 -  13858734 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAAGAACATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290645 45 +  32716333 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAATAACATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704055 45 - 185818997 TTCTGCTTTGGCGTTACAGTAATTTATAAATTCTAAAAGAACGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338738 45 - 192294377 TTCTGCTTTGGCGTTACAGTAATTTATAAATTCTAAAAGAACGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974834 45 -  30496662 TTCTGCTTTGGCGTTACAGTAATTTATAAATTCTAAAAGAACGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487163 45 +  21915920 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAAGAACGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988195 45 -  90373283 TTCTGCTTTGGCGTTACAGTAATTTATAAATTCTAAAAGAACGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495636 45 +   7543664 TTCTGCTTTGGCATTACAGTAATTTATAAATTCTAAAAGAACATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263728 45 -  13750039 TTCTGCTTTGGCGTTACAGTAATTTATAAATTCTAAAAGAATGCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523071 45 +  50472720 TTCTGTTTTGGTGTTATGGTAATTCATAAATTCTAAAAGAACATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703929 45 +  13128814 ttctgctttggtgttatggtaattgataaattcttaaagaacatt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947457 45 -  14377064 ttccgctttggtgttatggtaatttataaattctaaaagaacatt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9169977 45 -   9889416 TTCTGCTTTGGTGTTATGGTAATTTATAAATTCTAAAAGAAAATT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18065918 40 +  39895921 TCCTCATTTTGCATTATGGCACTTTA-----TTCAAAAGGAAATT
i canFam3.chr31             I 2 C 0
e micMur3.chr31              23721589 961 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e otoGar3.GL873528           24887036 628 -  38779656 I

a score=176884.000000
s hg38.chr21_GL383579v2_alt    125791 14 +    201197 TTTCTTAaaaacat
s panTro5.chr21               8744637 14 +  33445071 TTTCTTAAAAACAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283749 14 +  46275980 TTTCTTAAAAACAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266293 14 -  13858734 TTTCTTAAAAACAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290690 14 +  32716333 TTTCTTAAAAACAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704100 14 - 185818997 TTTCTTAAAAACAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338783 14 - 192294377 TTTCTTAAAAACAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974879 14 -  30496662 TTTCTTAAAAACAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487208 14 +  21915920 TTTCTTAAAAACAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988240 14 -  90373283 TTTCTTAAAAACAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495681 14 +   7543664 TTTCTTAAAAACAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263773 14 -  13750039 TCTCTTAAAAACAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523116 14 +  50472720 TTTCTTAAAAATAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703974 14 +  13128814 tttcttgaaaacat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947502 14 -  14377064 tttcttgaaaatat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9170022 14 -   9889416 TTTCTTGAAAATAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24887664 14 -  38779656 TTTTTAAAAAACAT
i otoGar3.GL873528          I 628 C 0
s canFam3.chr31              18065958 14 +  39895921 TTTCTTAAAAATAT
i canFam3.chr31             C 0 I 204
e micMur3.chr31              23721589 961 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I

a score=5322882.000000
s hg38.chr21_GL383579v2_alt    125805 517 +    201197  
s panTro5.chr21               8744651 517 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22283763 517 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266307 516 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9290704 514 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704114 517 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167338797 517 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4974893 517 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487222 517 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988254 517 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3495695 512 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5263787 517 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523130 515 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8703988 513 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13947516 514 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9170036 517 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24887678 508 -  38779656  
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18066176 536 +  39895921  
i canFam3.chr31             I 204 C 0
e micMur3.chr31              23721589 961 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I

a score=107955.000000
s hg38.chr21_GL383579v2_alt    126322 7 +    201197 AAAATGG
s panTro5.chr21               8745168 7 +  33445071 AAAATGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284280 7 +  46275980 AAAATGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266823 7 -  13858734 AAAATGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291218 7 +  32716333 AAAATCG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704631 7 - 185818997 AAAATGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339314 7 - 192294377 AAAATGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975410 7 -  30496662 AAAATGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487739 7 +  21915920 AAAATGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988771 7 -  90373283 AAAATGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3496207 7 +   7543664 AAAATGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264304 7 -  13750039 AAAATGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523645 7 +  50472720 AAAATGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704501 7 +  13128814 aaaatgg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13948030 7 -  14377064 AAAATGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9170553 7 -   9889416 AAAATGG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23722550 7 +  47401472 AAAATGG
i micMur3.chr31             I 961 C 0
s otoGar3.GL873528           24888187 7 -  38779656 AAAATGG
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18066712 7 +  39895921 AAAATGG
i canFam3.chr31             C 0 I 204
e dasNov3.JH578070            2416114 2448 +   3081153 I

a score=425196.000000
s hg38.chr21_GL383579v2_alt    126329 40 +    201197 TTAAATATAA-----GAAAT----AA---------AGATAAATGAGTAATTTC----ATAAA
s panTro5.chr21               8745175 40 +  33445071 TTAAATATAA-----GAAAT----AA---------AGATAAATGAGTAATTTC----ATAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284287 40 +  46275980 TTAAATATAA-----GAAAT----AA---------AGATAAATGAGTAATTTC----ATAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266830 40 -  13858734 TTAAATATAA-----GAAAT----AA---------AGATAAATGAGTAATTTC----ATAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291225 48 +  32716333 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCATAAATAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704638 48 - 185818997 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCTTAAATAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339321 48 - 192294377 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCTTAAATAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975417 48 -  30496662 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCTTAAATAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487746 48 +  21915920 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCTTAAATAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988778 48 -  90373283 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCTTAAATAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3496214 48 +   7543664 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCTTAAATAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264311 57 -  13750039 TTAAATATAA-----GAAATAAACAAAGATAAATGAGATAAATGAGTAATTTCTTAAATAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523652 48 +  50472720 TTAAATATAA-----GAAATAAACAA---------AGATAAATGAGTAATTTCATAAAGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704508 48 +  13128814 ttaaatataa-----gaaataaacaa---------agataaatgagtaatttcataaagaca
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13948037 48 -  14377064 TTAAATATAA-----GAAATAAACAA---------AGATAAATAAGTAATTTCATAAAGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9170560 47 -   9889416 TTAAATATAA------AAATAAGCAA---------AGATAAATGAGTAATTTCATAAAGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23722557 40 +  47401472 CTAAACATTA-----GAAATAAACAA-------------AAATGAGTAATTTCACAAA----
i micMur3.chr31             C 0 I 1630
s otoGar3.GL873528           24888194 45 -  38779656 CAAAATATGAGAAATGAAATAAACAA-------------AAATGGATAATTTTATAAT----
i otoGar3.GL873528          C 0 I 5
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18066719 204 +  39895921 I

a score=917207.000000
s hg38.chr21_GL383579v2_alt    126369 101 +    201197 TTAGGCCTCTCAGAAATTCAGATATGGAATTTATC-----------CAACATAATACAATGTGAC----------------TATTATT---------AAATGACTATTAAAGTTGAAATACAGAATTGAAAATAAGA
s panTro5.chr21               8745215 101 +  33445071 TTAGGCCTCTCAGAAATTCAGATATGGAATTTATC-----------CAACATAATACAATGTGAC----------------TATTATT---------AAATGACTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284327 101 +  46275980 TTAGGCCTCTCAGAAATTCAGATATGGAATTTATC-----------CAACATAATACAATGTGAC----------------TATTATT---------AAATGACTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266870 101 -  13858734 TTAGGCCTCTCAGAAATTCAGATATGGAATTTATC-----------CAACATAATACAATGTGAC----------------TATTATT---------AAATGACTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291273 101 +  32716333 TTAGGCCTCTCAGAAATTCAGATATGGAATTTATT-----------CAACATAATACAATGTAAC----------------TATTATC---------AAATGGCTATTAAAGTTAAAATACAGAATTGAAAATAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704686 101 - 185818997 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTATC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339369 101 - 192294377 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTATC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975465 101 -  30496662 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTATC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487794 101 +  21915920 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTATC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAACAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988826 101 -  90373283 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTAAC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3496262 101 +   7543664 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTATC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAACAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264368 101 -  13750039 TTAGGCCTCTCAGATATTCAGATATGGAATTTATC-----------CAACATAATACAATGTAAC----------------TATTATT---------AAATGGCTATTAAAGTTGAAATACAGAATTGAAAATAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523700  99 +  50472720 TTAGACCTCTCAAAAATTCAGATTTGGGATTTATC-----------AAACATGATACAAAGTAAC----------------TATTATT----------TATGGCTATGAATGTCAAACTACAGAATTGAAAAT-ACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704556  99 +  13128814 ttagacctctcagaaacttagatttgggatttatc-----------aaacataatacaaaataac----------------tactatt----------aatggctatgaatgtcaaaatacagaattgaaaat-ata
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13948085  97 -  14377064 TTACACCTCTCAGAAATTCAGATTTGGGATTTATG-----------AAACATAATACAAAATAA------------------ATTATT----------AATGGCTATGAATGTCAAAATACAGAATTGAAAAT-ATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9170607  99 -   9889416 TTAGACCTCTCAGAAATTCAGATTTGGTATTTATC-----------AAACATAATACAAAATAAC----------------TATTATT----------AATGGCTATGAATGTCAAAATACAGAATTGAAAAT-ATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24888244 130 -  38779656 TTAGATGCTTTGGAAATTTAAATATTGGATTAATCACAGTAAAAATAACtataatacaatatgacatgataaaatacagtatagtatggtatagtacaaATGGCTATTAAAAT-GAAGCATAAAAATAAGA------
i otoGar3.GL873528          I 5 I 5759
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18066719 204 +  39895921 I

a score=779161.000000
s hg38.chr21_GL383579v2_alt    126470 76 +    201197 GCCATAAGCATTATACTGTGAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
s panTro5.chr21               8745316 76 +  33445071 GCCATAAGCATTATACTGTGAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284428 76 +  46275980 GCCATAAGCATTATACTGTGAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8266971 76 -  13858734 GCCATAAGCATTATGCTGTGAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTACTATGATACTTCAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291374 76 +  32716333 GCCATAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGACTGGCTGCCTATTATGATACTTCAAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160704787 76 - 185818997 GCTTTAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339470 76 - 192294377 GCCATAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975566 76 -  30496662 GCCATAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13487895 76 +  21915920 GCCATAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19988927 76 -  90373283 GCCATAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGCCTGGCTGCCTATTATGATACTTCAAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3496363 76 +   7543664 GCCATAAGCATTATACTGTAAAACATTGTTAGGAAAAAAGAAATGAGCGTGGCTGCCTATTATGATACTTCAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264469 76 -  13750039 GCCATAAGCATTATGCTGTAAAACATTGTTAGGAGAAAAGAAATGAGCCTGGTTGCCTATTATGATACTTCAAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26523799 75 +  50472720 GCCATAAACATAATACTGTAAAACATTGTTAGGAAAAGAGAAATCTGCCTGGCTGCCTATTACAATACTTC-AAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704655 76 +  13128814 gccataaatattatactgtaaaacattgttaggaaaaaagaaatctgcctggctgcctattatgatacttcaaaaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13948182 76 -  14377064 GCCATAAATATTATACTGTAAAACATTGTTAGGAAAAAAGAAATCTGCCTGACTGCCTATTATGATACTTCAAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9170706 76 -   9889416 GCCATAAATATTATACTGTAAAACATTGTTAGGAAAAAAGAAATCTGCCTGGCTGCCTATTATGATACTTCAAAAA
i aotNan1.NW_018487195v1    C 0 I 7
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18066719 204 +  39895921 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=37883.000000
s hg38.chr21_GL383579v2_alt    126546 5 +    201197 ATGTA
s panTro5.chr21               8745392 5 +  33445071 ATATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284504 5 +  46275980 ATATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267047 5 -  13858734 ATATA
i gorGor5.CYUI01015003v1    C 0 I 4
s nomLeu3.chr25               9291450 5 +  32716333 ACATA
i nomLeu3.chr25             C 0 I 8
s rheMac8.chr3              160704863 5 - 185818997 ATATA
i rheMac8.chr3              C 0 I 32
s macFas5.chr3              167339546 5 - 192294377 ATATA
i macFas5.chr3              C 0 I 28
s macNem1.NW_012015021v1      4975642 5 -  30496662 ATATA
i macNem1.NW_012015021v1    C 0 I 8
s cerAty1.NW_012002954v1     13487971 5 +  21915920 ATATA
i cerAty1.NW_012002954v1    C 0 I 28
s chlSab2.chr2               19989003 5 -  90373283 ATATA
i chlSab2.chr2              C 0 I 16
s manLeu1.NW_012103476v1      3496439 5 +   7543664 ATATA
i manLeu1.NW_012103476v1    C 0 I 43
s colAng1.NW_012120598v1      5264545 5 -  13750039 ATATA
i colAng1.NW_012120598v1    C 0 I 8
s calJac3.chr21              26523874 5 +  50472720 ACATA
i calJac3.chr21             C 0 I 24
s saiBol1.JH378168            8704731 5 +  13128814 acata
i saiBol1.JH378168          C 0 I 20
s cebCap1.NW_016107322v1     13948258 5 -  14377064 ACATA
i cebCap1.NW_016107322v1    C 0 I 28
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9170782 7 -   9889416 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=1779072.000000
s hg38.chr21_GL383579v2_alt    126551 213 +    201197 agatagatagat-----aatagtgataaataggtagaat--tatatatatagaatgatataggtatagagagattacatagtgatat--gagaaagagagataaatTAAAATCTCAAATGATAGTTTGAACCACaaagtagccaacaaagaattaatacagaggga-----aaataagtaataactacaaaaattagaatataatagtttatattagtagtagattt
s panTro5.chr21               8745397 213 +  33445071 agatagatagat-----aatagtgataaataggtagaat--tatatatatagaatgatataggtatagagagattacatagtgatat--gagaaagagagataaatTAAAATCTCAAATGATAGTTTGAACCACAAAGTAGCCAACAAAGAATTAATACAGAGGGA-----AAATAAGTAATAACTACAAAAATTAGAATATAATAGTTTATATTAGTAGTAGATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284509 213 +  46275980 agatagatagat-----aatagtgataaataggtagaat--tatatatatagaatgatataggtatagagagattacatagtgatat--gagaaagagagataaatTAAAATCTCAAATGATAGTTTGAACCACAAAGTAGCCAACAAAGAATTAATACAGAGGGA-----AAATAAGTAATAACTACAAAAATTAGAATATAATAGTTTATATTAGTAGTAGATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267056 213 -  13858734 agatagatagat-----aatagtgataaatagatagaat--tatatatatagaatgatataggtatagagagattacatagtggtat--gagaaagagagataaatTAAAATCTCAAATGATAGTTTGAACCACAAAGTAGCCAACAAAGAATTAATACAGAGGGA-----AAATAAGTAATGACTACAAAAATTAGAATATAATAGTTTATATTAGTGGTAGATTT
i gorGor5.CYUI01015003v1    I 4 I 16
s nomLeu3.chr25               9291463 198 +  32716333 agatagatagat-----aatagtgataaataggtagaat--tatatatataaaatgatatagat------agatTCCATAGTGATAT--GAGAG--------AAATTAAAATCTCAAATGATAGTTTAAACCACAAAGTAGCCAAGAAAAAATTAATACAGAGGGA-----Aaataagtaataactac-aaaattaaaatataataatttatattaGTagtagattt
i nomLeu3.chr25             I 8 C 0
s rheMac8.chr3              160704900 220 - 185818997 agatagatagatagataaatagTGAGAAATAGGTAGAATtatatatatatagaatgatataggtatagatagattacatagtgatat--gaGAAAGAGAGAAAAATTAAAATCTCAAATGATAGTTTAAACCATAAAGTAGCCAAGAAAGAATTAATACAGAAGGA-----AAATAAGTAATAACTACAAAGATTAAAATATAATAGTTTATATTAGTggtagattt
i rheMac8.chr3              I 32 I 25
s macFas5.chr3              167339579 220 - 192294377 agatagatagatagataaatagTGAGAAATAGGTAGAATtatatatatatagaatgatataggtatagatagattacatagtgatat--gaGAAAGAGAGAAAAATTAAAATCTCAAATGATAGTTTAAACCATAAAGTAGCCAAGAAAGAATTAATACAGAAGGA-----AAATAAGTAATAACTACAAAGATTAAAATATAATAGTTTATATTAGTggtagattt
i macFas5.chr3              I 28 C 0
s macNem1.NW_012015021v1      4975655 218 -  30496662 agatagatagatagataaatagTGAGAAATAGGTAGAATtatatatatatagaatgatataggtatagatagattacataGTGATAT--GAG--AGAGAGAAAAATTAAAATCTCAAATGATAGTTTAAACCATAAAGTAGCCAAGAAAGAATTAATACAGAAGGA-----AAATAAGTAATAACTACAAAGATTAAAATATAATAGTTTATATTAGTggtagattt
i macNem1.NW_012015021v1    I 8 I 25
s cerAty1.NW_012002954v1     13488004 220 +  21915920 agatagatagatagataaatagTGAGAAATAGGTAGAATtatatatatatagaatgatataggtatagatagattacatagtgatat--gaGAAAGAGAGAAAAATTAAAATCTCAAATGATAGTTTAAACCATAAAGTAGCCAAGAAAGAATTAATACAGAAGGA-----AAATAAGTAATAACTACAAAGATTAAAATATAATAGTTTATATTAGTggtagattt
i cerAty1.NW_012002954v1    I 28 I 25
s chlSab2.chr2               19989024 220 -  90373283 acatagatagatagataaatagTGATAAATAGGTAGAATTATATATATATAGAATGATATAGGTAGAGATAGATTACATAGTGATAT--GAGAAAGAGAGAAAAATTAAAATCTCAAATGATAGTTTAAACCATAAAGTAGCCAAGAAAGAATTAATACAGAAGGA-----AAATAAGTAAAAACTACAAAAATTAAAATATAATAGTTTATATTAGTggtagattt
i chlSab2.chr2              I 16 I 25
s manLeu1.NW_012103476v1      3496487 220 +   7543664 agatagatagatagataaatagTGAGAAATAGGTAGAATtatatatatatagaatgatataggtatagatagatTACACAGTGATAT--GAGAAAGAGAGAAAAATTAAAATCTCAAATGATAGTTTAAATCATAAAGTAGCCAAGAAAGAATTAATACAGAAGGA-----AAATAAGTAATAACTACAAAGATTAAAATATAATAGTTTATATTAGTggtagattt
i manLeu1.NW_012103476v1    I 43 C 0
s colAng1.NW_012120598v1      5264558 213 -  13750039 agatagatagat-----aatagtgataaataggtagaa--gtatatatatagaatgatataggtatagatagattacatagTGATAT--GAGAACGGGAGAAAAATTAAAATCTCAAATGATAGTTTAAACCATAAAGTAGTCAAGAAGGAATTAATACAGAAGAA-----AAATAAGTAATAACTATAAAAATTAAAATATAATAGTTTATATTATTGGTACATTT
i colAng1.NW_012120598v1    I 8 C 0
s calJac3.chr21              26523903 205 +  50472720 agatagatagat-----aattgtg----atagatagaat--gatagataTAGAAGGATATAGG-ATATATAGA---CATAGTGATAT--GAG----AGAGAGAAATTAAAATCTCAAATAATAGCTTAAACTACAGAGTAGCCAATAAA-AATTAATACAGAAGGAAAAATAAATAGTTAATAACTACAGAAATTAAGATATAATAGTTTCTATTTGTAGTAGATTT
i calJac3.chr21             I 24 C 0
s saiBol1.JH378168            8704756 206 +  13128814 agatagatagat-----aatagtg----acagatagaat--gatagatatagaataatatagg-atagataga---tatagtgatat--gag----agagagaaattaaaatctcaagtaatagcttaaactacagagcagccaagaaagaattaatacagaagaAAAAATAAATAGTTAATAACTACAGAAATTAATATATAATAGTTTCTATTAGTAGTAGATTT
i saiBol1.JH378168          I 20 C 0
s cebCap1.NW_016107322v1     13948291 204 -  14377064 agatcgatagat-----aatagt--------gatagaat--gatagataTAGAATGATATAGG-ATAGATAGA---CATGGTGATATGAGAG----AGAGAGAAATTAAAGTCTCAAATAACAGCTTAAACTACAGAGTAGCCAAGAAATAATTAATACAGAAGGAAAAATAAATAGTTAATAACTACAGAAATTAAGATATAATACTTTCTGTTAGTAGTAGATTT
i cebCap1.NW_016107322v1    I 28 I 27
s aotNan1.NW_018487195v1      9170789 202 -   9889416 aggtagatagat-----aatagcg----atagatagaat--gatagatatagaaggatatagg-atagataga---cacagtgatat--gag----agaGAAAAATTAAAATCTC----AATAGCTTAAACTACAGAGTAGCCAAGAAAGAATCAATACAGAAGGAAAAATAAATAGTTAATAACTACAGAAATTAAGATATAATAGTTTCTATCAGTAGTAGATTT
i aotNan1.NW_018487195v1    I 7 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18066719 204 +  39895921 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=-2882.000000
s hg38.chr21_GL383579v2_alt    126764 5 +    201197 atatt-
s panTro5.chr21               8745610 1 +  33445071 C-----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284722 1 +  46275980 C-----
i panPan2.chr21             C 0 C 0
s aotNan1.NW_018487195v1      9170991 5 -   9889416 -CAACT
i aotNan1.NW_018487195v1    C 0 I 20
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e cerAty1.NW_012002954v1     13488224 25 +  21915920 I
e macNem1.NW_012015021v1      4975873 25 -  30496662 I
e macFas5.chr3              167339799 0 - 192294377 C
e rheMac8.chr3              160705120 25 - 185818997 I
e cebCap1.NW_016107322v1     13948495 27 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e calJac3.chr21              26524108 0 +  50472720 C
e saiBol1.JH378168            8704962 0 +  13128814 C
e otoGar3.GL873528           24888374 5759 -  38779656 I
e colAng1.NW_012120598v1      5264771 0 -  13750039 C
e manLeu1.NW_012103476v1      3496707 0 +   7543664 C
e gorGor5.CYUI01015003v1      8267269 16 -  13858734 I
e chlSab2.chr2               19989244 25 -  90373283 I
e nomLeu3.chr25               9291661 0 +  32716333 C

a score=3010.000000
s hg38.chr21_GL383579v2_alt    126769 15 +    201197 atatagcacaaaaaa
s panTro5.chr21               8745611  4 +  33445071 -----------AACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284723  4 +  46275980 -----------AACA
i panPan2.chr21             C 0 C 0
s nomLeu3.chr25               9291661  5 +  32716333 ----------caaca
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167339799  5 - 192294377 ----------caaca
i macFas5.chr3              C 0 C 0
s manLeu1.NW_012103476v1      3496707  5 +   7543664 ----------caaca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264771  5 -  13750039 ----------CAACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26524108  5 +  50472720 ----------CAATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704962  5 +  13128814 ----------CAACA
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e cerAty1.NW_012002954v1     13488224 25 +  21915920 I
e macNem1.NW_012015021v1      4975873 25 -  30496662 I
e rheMac8.chr3              160705120 25 - 185818997 I
e cebCap1.NW_016107322v1     13948495 27 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9170996 20 -   9889416 I
e otoGar3.GL873528           24888374 5759 -  38779656 I
e gorGor5.CYUI01015003v1      8267269 16 -  13858734 I
e chlSab2.chr2               19989244 25 -  90373283 I

a score=46730.000000
s hg38.chr21_GL383579v2_alt    126784 22 +    201197 tatagcacaaaatatagcac-aa
s panTro5.chr21               8745615 22 +  33445071 TACTACCCAAAATATAGCAC-AA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284727 23 +  46275980 TACTACCCAAAATATAGCACAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267285 11 -  13858734 ------------TATAGCACCAA
i gorGor5.CYUI01015003v1    I 16 C 0
s nomLeu3.chr25               9291666 20 +  32716333 tactacccaaaatatagcac---
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167339804 20 - 192294377 tactacccaaaatatagtac---
i macFas5.chr3              C 0 C 0
s manLeu1.NW_012103476v1      3496712 22 +   7543664 tactacccaaaatatagtac-ga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264776 22 -  13750039 TACTACCCAAAATATAGTAC-GA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26524113 22 +  50472720 TACTACCCAAAATCTAGCAT-GG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704967 22 +  13128814 TACTACCCAAAatctagcat-gg
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e cerAty1.NW_012002954v1     13488224 25 +  21915920 I
e macNem1.NW_012015021v1      4975873 25 -  30496662 I
e rheMac8.chr3              160705120 25 - 185818997 I
e cebCap1.NW_016107322v1     13948495 27 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9170996 20 -   9889416 I
e otoGar3.GL873528           24888374 5759 -  38779656 I
e chlSab2.chr2               19989244 25 -  90373283 I

a score=1302.000000
s hg38.chr21_GL383579v2_alt    126806 1 +    201197 a
s panTro5.chr21               8745637 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284750 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267296 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291686 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705145 1 - 185818997 g
i rheMac8.chr3              I 25 C 0
s macFas5.chr3              167339824 1 - 192294377 g
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975898 1 -  30496662 g
i macNem1.NW_012015021v1    I 25 C 0
s cerAty1.NW_012002954v1     13488249 1 +  21915920 g
i cerAty1.NW_012002954v1    I 25 C 0
s chlSab2.chr2               19989269 1 -  90373283 g
i chlSab2.chr2              I 25 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e cebCap1.NW_016107322v1     13948495 27 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9170996 20 -   9889416 I
e calJac3.chr21              26524135 0 +  50472720 C
e saiBol1.JH378168            8704989 0 +  13128814 C
e otoGar3.GL873528           24888374 5759 -  38779656 I
e colAng1.NW_012120598v1      5264798 0 -  13750039 C
e manLeu1.NW_012103476v1      3496734 0 +   7543664 C

a score=4664.000000
s hg38.chr21_GL383579v2_alt    126807 1 +    201197 a
s panTro5.chr21               8745638 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284751 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267297 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291687 1 +  32716333 a
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705146 1 - 185818997 a
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339825 1 - 192294377 a
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975899 1 -  30496662 a
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13488250 1 +  21915920 a
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19989270 1 -  90373283 a
i chlSab2.chr2              C 0 C 0
s saiBol1.JH378168            8704989 1 +  13128814 a
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9171016 1 -   9889416 G
i aotNan1.NW_018487195v1    I 20 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e cebCap1.NW_016107322v1     13948495 27 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e calJac3.chr21              26524135 0 +  50472720 C
e otoGar3.GL873528           24888374 5759 -  38779656 I
e colAng1.NW_012120598v1      5264798 0 -  13750039 C
e manLeu1.NW_012103476v1      3496734 0 +   7543664 C

a score=693672.000000
s hg38.chr21_GL383579v2_alt    126808 78 +    201197 aaaatgacagaaaagagattgaagaaaaataggacaaattaagaggcattgaggacacaataaaattgtcttcataac
s panTro5.chr21               8745639 78 +  33445071 AAAATGACAGAAAAGAGATTGAAGAAAAATAGGACAAATTAAGAGGCATTGAGGACACAATAAAATTGTCTTCATAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284752 78 +  46275980 AAAATGACAGAAAAGAGATTGAAGAAAAATAGGACAAATTAAGAGGCATTGAGGACACAATAAAATTGTCTTCATAAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267298 77 -  13858734 AAAATG-CAGAAAAGAGATTGAAGAAAAATAGGACAAATTAAGAGGCATTGAGGACACAATAAAATTGTCTTCATAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291688 78 +  32716333 aaaataacagaaaagagattgaagaaaaataggccaaattaagaggcattgaggacacaataaaattgtcttcataac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705147 78 - 185818997 aaaatgacagaaaagagattgaagaaaaataggaaaaattaagagacacggaggacagaataaaattgtcttcataac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339826 78 - 192294377 aaaatgacagaaaagagattgaagaaaaataggaaaaattaagagacacggaggacagaataaaattgtcttcataac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975900 78 -  30496662 aaaatgacagaaaagagattgaagaaaaataggaaaaattaagagacacggaggacacaataaaattgtcttcataac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13488251 78 +  21915920 aaaatgacagaaaagagattgaagaaaaataggaaaaattaagagacacggaggacacaataaaattgtcttcataac
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19989271 78 -  90373283 aaaatgacagaaaagagattgaagaaaaataggacaaactaagagacacggaggacacaataaaattgtcttcataac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3496734 78 +   7543664 aaaatgacagaaaagagattgaaggaaaataggacaaattaagagacacggaggacacaataaaattgtcttcataac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264798 78 -  13750039 AAAATGGCAGAAAAGAGATTGAAGAAAAATAGGACAAATTAAAGGACAAGGAGGACACAACAAAATTGTCTTCATAGC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26524135 78 +  50472720 AAAATGAGAGAAAATAGACTGACGAAAAACAGGACAAAATAAGAGGCATAAAGGACACAATGAAATTGTTTGCAAAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8704990 77 +  13128814 aaaatgagagaaaatagattgacgaaaaacagaacaaaataagaggcacagaggacac-atgaaattgtttgcataac
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13948522 77 -  14377064 AAAATAAGAGAAAATAGATGGAAGAAAAACAGGACAAAATAAAAGGCATAGAGGACAC-ATGAAACTATTTGCATAAC
i cebCap1.NW_016107322v1    I 27 C 0
s aotNan1.NW_018487195v1      9171017 78 -   9889416 GAAATGAGAGAAAATAGACTGATGAAAAACAGGACAAAATAAGAGGCATAGAGGACACAATGAAACTGCTTGCATAAC
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2416114 2448 +   3081153 I
e canFam3.chr31              18066719 204 +  39895921 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=4917673.000000
s hg38.chr21_GL383579v2_alt    126886 513 +    201197  
s panTro5.chr21               8745717 508 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22284830 508 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267375 507 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9291766 505 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705225 508 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167339904 508 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4975978 509 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13488329 508 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19989349 508 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3496812 508 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5264876 508 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26524213 512 +  50472720  
i calJac3.chr21             C 0 I 665
s saiBol1.JH378168            8705067 523 +  13128814  
i saiBol1.JH378168          C 0 I 70
s cebCap1.NW_016107322v1     13948599 520 -  14377064  
i cebCap1.NW_016107322v1    C 0 I 550
s aotNan1.NW_018487195v1      9171095 523 -   9889416  
i aotNan1.NW_018487195v1    C 0 I 352
s dasNov3.JH578070            2418562 617 +   3081153  
i dasNov3.JH578070          I 2448 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e canFam3.chr31              18066719 204 +  39895921 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=134983.000000
s hg38.chr21_GL383579v2_alt    127399 20 +    201197 CTGTAGGAGGACAGGCAATT
s panTro5.chr21               8746225 20 +  33445071 CTGTAGGAGGACAGGCAATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285338 20 +  46275980 CTGTAGGAGGACAGGCAATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267882 20 -  13858734 CTGTAGGAGGACAGGCAATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292271 20 +  32716333 CTGTAGGAAGACAGGCAATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705733 20 - 185818997 CCGTAGGAGGACAGGTAATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340412 20 - 192294377 CCGTAGGAGGACAGGTAATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4976487 20 -  30496662 CCGTAGGAGGACAGGTAATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13488837 20 +  21915920 CCATAGAAGGACAGGTAATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19989857 20 -  90373283 CCATAGAAGGACAGGTCATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497320 20 +   7543664 CCATCGAAGGACAGGTAATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265384 20 -  13750039 CCGTAGGAGGACAGGTAATT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8705660 20 +  13128814 CTGTAAGAGGACAGGTAACT
i saiBol1.JH378168          I 70 I 221
s dasNov3.JH578070            2419179 20 +   3081153 CTATAGGAGGAAAGGTTGTT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=799636.000000
s hg38.chr21_GL383579v2_alt    127419 147 +    201197 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCTGAATGAAGTAAGcatcacaaggatgctaaagtccttcctctatgtaacttcccctaataaatgctttgaactaatACCAACAAACCAACA-----AAACAAAACACACC
s panTro5.chr21               8746245 147 +  33445071 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCTGAATGAAGTAAGcatcacaaggatgctaaagtccttcctctatgtaacttcccctaataaatgctttgaactaatACCAACAAACCAACA-----AAACAAAACACACC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285358 147 +  46275980 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCTGAATGAAGTAAGcatcacaaggatgctaaagtccttcctctatgtaacttcccctaataaacgctttgaactaatACCAACAAACCAACA-----AAACAAAACACACC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8267902 143 -  13858734 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCTGAATG----AAGcatcacaaggatgctaaagtccttcctctatgtaacttcccctaataaatgctttgaactaatACCAACAAACCAACA-----AAGTAAAACACACC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292291 147 +  32716333 TGACAGTCCTAGTGCATTAAATGGTACAATCTAATATAATTCTGAATGAAGTAAGcatcacaaggatgctaaagtcttttctctatttaacttcccctaataaatgctttgaactaatACCAACAAACAAACA-----AAACAAAACACACC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705753 147 - 185818997 TGACAGTCCTAGTACATTAGGTGGTACAATCTAGTATGATTCGGAATGAAGGAAGcatcacaaggatgctaaagtcctttctctatgtaacttcccctaataaatgctttgaactAGTACCAACAAAACAACA-----AAACAAAACACACC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340432 147 - 192294377 TGACAGTCCTAGTACATTAGGTGGTACAATCTAGTATGATTCGGAATGAAGGAAGcatcacaaggatgctaaagtcctttctctatgtaacttcccctaataaatgctttgaactAGTACCAACAAAACAACA-----AAACAAAACACACC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4976507 147 -  30496662 TGACAGTCCTAGTACATTAGGTGGTACAATCTAGTATGATTCGGAATGAAGGAAGcatcacaaggatgctaaagtcctttctctatgtaacttcccctaataaatgctttgaactAGTACCAACAAAACAACA-----AAACAAAACACACC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13488857 152 +  21915920 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCGGAATGAAGGAAGcatcacaaggatgctaaagtcctttctctatgtaatttcccctaataaatgctttgaactaatACcaacaaaccaacaacaacaaaaaaaacaCAGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19989877 139 -  90373283 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCTGAATGAAGTAAGcatcacaaggatgctaaagtcctttctctatgtaacttcccctaataaatgctttgaattAGTACCAACAAAAC-------------AAAACACACC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497340 152 +   7543664 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCGGAATGAAGGAAGcatcacaaggatgctaaagtcctttctctatgtaatttcccctaataaatgctttgaactaatACcaacaaaccaacaacaacaaaaaaaacaCAGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265404 147 -  13750039 TGACAGTCCTAGTGCATTAGGTGGTACAATCTAGTATGATTCGGAAAGAATTAAGcatcacaaggatgctaaagtcctttctctatgtaacttcccctaataaatactttgaactaatATCAACAAACCAACA-----AAACAAAACACACC
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2419199  75 +   3081153 TAATTTTCTTAGTGCATTATGTGAAATAACATAGTATAATTCTGCACATAATGAACA-------GTTACTGA------------------------------------TTGGGCTGAT----------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23722597 1630 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           24888374 5759 -  38779656 I

a score=359654.000000
s hg38.chr21_GL383579v2_alt    127566 63 +    201197 TCTGTAATTCCAGATT---ACAACAGTTCATACTTTTTACATATTTTTATACAGGGATTCAATGAA
s panTro5.chr21               8746392 63 +  33445071 TCTGTAATTCCAGATT---ACAACAGTTCATACTTTTTACATATTTTTATACAGGGATTCAATGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285505 63 +  46275980 TCTGTAATTCCAGATT---ACAACAGTTCATACTTTTTACATATTTTTATACAGGGATTCAATGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268045 63 -  13858734 TCTGTAATTCCAGATT---ACAACAGTTCATACTTTTTACATATTTTTATACAGGGATTCAATGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292438 63 +  32716333 TCTGTAATTCCAGATG---ACAACAGTTCATACTTTTTACATATTTTTATGCACGGATTCAATGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705900 62 - 185818997 TCTGTAATTCCAGATG---ACAACAGTTGAAAC-TTTTATATACTTTTATACAGGGATTCAGTGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340579 62 - 192294377 TCTGTAATTCCAGATG---ACAACAGTTGAAAC-TTTTATATACTTTTATACAGGGATTCAATGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4976654 62 -  30496662 TCTGTAATTCCAGATG---ACAACAGTTGAAAC-TTTTATATACTTTTATACAGGGATTCAATGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489009 62 +  21915920 TCTGTAATTCCAGATG---ACAACAGTTAATAC-TTTTATATATTTTTATACAGGGATTCAATGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990016 62 -  90373283 TCTGTAATTCCAGATG---ACAACAGTTGATAC-TTTTATATACTTTTATACAGGGATTCAATGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497492 62 +   7543664 TCTGTAATTCCAGATG---ACAACAGTTCATAC-TTTTATATATTTTTATACAGGGATTCAATGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265551 52 -  13750039 TCTGTAATTCCAGATG---ACAACAGTTG-----------ATACTTTTATACAGGGATTCAATGAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           13893052 66 +  38779656 TTTGCAATTCCAGATGAAAACAACAGTTCATACATTTAAAATATTTTTGTACAGGGAATCAATGAA
i otoGar3.GL873528          n 5759 n 5759
e micMur3.chr31              23722597 1630 +  47401472 I
e dasNov3.JH578070            2419274  0 +   3081153 C
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I

a score=190624.000000
s hg38.chr21_GL383579v2_alt    127629 35 +    201197 TCCCTTTTAAGGCATGCCAAAGGAAAATGCTTACT
s panTro5.chr21               8746455 35 +  33445071 TCCCTTTTAAGGCATGCCAAAGGAAAATGCTTACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285568 35 +  46275980 TCCCTTTTAAGGCATGCCAAAGGAAAATGCTTACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268108 35 -  13858734 TCCCTTTTAAGGCATGCCAGAGGAAAATGCTTACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292501 35 +  32716333 TCCCTTTTAAGGTGTGCCAAAGGTAAATGCTTACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705962 35 - 185818997 TCCCTTTTAAGATGTGCTAAAGGAAAACGCTTACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340641 35 - 192294377 TCCCTTTTAAGATGTGCTAAAGGAAAACGCTTACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4976716 35 -  30496662 TCCCTTTTAAGATGTGCTAAAGGAAAACGCTTACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489071 35 +  21915920 TTCCGTTTAAGATGTGCTAAAGGAAAATGCTTACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990078 35 -  90373283 TCCCTTTTAAGATGTGCTAAAGGAAAATGCTTACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497554 35 +   7543664 TTCCGTTTAAGATGTGCTAAAGGAAAATGCTTACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265603 35 -  13750039 TTCCTTTTAAGATGCGCTAAACGAAAATGCTTACT
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2419274 29 +   3081153 -----TTTGAGCAATGCCA-AGAAACATGCTAATT
i dasNov3.JH578070          C 0 I 2
e micMur3.chr31              23722597 1630 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=215529.000000
s hg38.chr21_GL383579v2_alt    127664 29 +    201197 AAGATTTACTTATTCTTGTATAAGTAGAG
s panTro5.chr21               8746490 29 +  33445071 AAGATTTACTTATTCTTGTATAAGTAGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285603 29 +  46275980 AAGATTTACTTATTCTTGTATAAGTAGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268143 29 -  13858734 AAGATTTACTTATTCTTGTATAAGTAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292536 29 +  32716333 AAGATTTACTTATTCTTGTGTAAGTAGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160705997 29 - 185818997 AAGATTTACTTATTCTTGTACAAGTAGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340676 29 - 192294377 AAGATTTACTTATTCTTGTACAAGTAGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4976751 29 -  30496662 AAGATTTACTTATTCTTGTACAAGTAGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489106 29 +  21915920 AAGATTTACTTATTCTTGTACAAGTAGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990113 29 -  90373283 AAGATTTACTTATTCTTGTACAAGTAGAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497589 29 +   7543664 AAGATTTACTTATTCTTGTACAAGTAGAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265638 29 -  13750039 AAGATTTACTTATTATTGTATAAGTAGAG
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23724227 29 +  47401472 AAGATTTACTTATTTTTGTATGAGTAGAG
i micMur3.chr31             I 1630 I 971
s dasNov3.JH578070            2419305 26 +   3081153 AAGAT---CTTATTTTTGTATAACTACAG
i dasNov3.JH578070          I 2 C 0
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=1369933.000000
s hg38.chr21_GL383579v2_alt    127693 245 +    201197 GTTGGGGAAAGGAACATAATAAAATACAGTAAGGTGATAATAGAACATCACAAAGTATTTAATTGCAT-------------------CACGTACATTAATGATATCACATT----ATTACTGAATTTATTTTAATTCTAAATGTTTTAAAAATTTGAGACAAAAAATTGCCTCTTGCTCTACAGTAGAGAGATTGTATCTCATTTTTTT-TGTACCCCATCTAAAAATTTAAATTGTTATAATCTTTA---------------CACTACACATAAAAAATTTTA
s panTro5.chr21               8746519 248 +  33445071 GTTGGGGAAAGGAACATAATAAAATACAGTAAGGTGATAATAGAACATCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGATATCACATTGTTTATTACTGAATTTATTTTAATTGTAAATGTTTTAAAAATTTGAGACAAAAAATTGCCTCTTGCTCTACAGTAGAGAGATTGTATCTCATTTTTTT--GTACCCCATCTAAAAATTTAAATTGTTATAATCTTTA---------------CACTACACATAAAAAATTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285632 248 +  46275980 GTTGGGGAAAGGAACATAATAAAATACAGGAAGGTGATAATAGAACATCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGATATCACATTGTTTATTACTGAATTTATTTTAATTGTAAATGTTTTAAAAATTTGAGACAAAAAATTGCCTCTTGCTCTACAGTAGAGAGATTGTATCTCATTTTTTT--GTACCCCATCTAAAAATTTAAATTGTTATAATCTTTA---------------CACTACACATAAAAAATTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268172 265 -  13858734 GTTGGGGAAAGGAACATAATAAAATACAGTAAGGTGATAATAGAACATCACAAAGTATTTAATTGCATACATTAAATACATTAAATACACATACATTAATGATATCGCATT----ATTACTGAATTTATTTTAATTGTAAATGTTTTAAAATTTTGAAACAAAAAATTGCCTCTTGCTCTACAGTAGAGAGATTGTATCTCATTTTCTTTTGCACCCCATCTAAAAATTTAAATTGTTATAATCTTTA---------------CACTACACATAAAAAATTTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292565 245 +  32716333 GTTGGGGAAAGGAACATAATAAAATACAATAACGTGATAATAGAACATCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGATATTGCATTGTTTATTACTGAATTTATTTTAATTGTAAATGTTTTAAAAATTTGAAACAAAAAATTTCCTCTTGCTCTACAGTAGAGAGATTGTATCTCATTTTCTTTTGTACCCCATCTAAAAATTTAAATTGTTATAATCTT--------------------TACACATAAAAAATTTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706026 245 - 185818997 GTTGGGGAAGGGAAAATAATAAAATACAATCAGGTGACAATAGACCTTCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGTTATTGTATTGTTTATTACTGAATTTATTTTAATGGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTTTTGCTCTACAGTAAAGAGATTGTATCTCATTTTCTTTTGTACCCCATCTAAAAATTTAAACTGCTATAATCTT--------------------TACACATAAATAATTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340705 245 - 192294377 GTTGGGGAAGGGAAAATAATAAAATACAATCAGGTGACAATAGACCTTCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGTTATTGTATTGTTTATTACTGAATTTATTTTAATGGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTTTTGCTCTACAGTAAAGAGATTGTATCTCATTTTCTTTTGTACCCCATCTAAAAATTTAAACTGCTATAATCTT--------------------TACACATAAATAATTTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4976780 245 -  30496662 GTTGGGGAAGGGAAAATAATAAAATACAATCAGGTGACAATAGACCTTCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGTTATTGTATTGTTTATTACTGAATTTATTTTAATGGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTTTTGCTCTACAGTAAAGAGATTGTATCTCATTTTCTTTTGTACCCCATCTAAAAATTTAAACTGTTATAATCTT--------------------TACACATAAATAATTTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489135 245 +  21915920 GTTGGGGAAGGGAAAATAATAAAATACAATCAGGTGACAATAGACCTTCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGTTATTGTATTGTTTATTACTGAATTTATTTTAATGGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTTTTGCTCTACAGTAAAGAGATTGTATCTCATTTTCTTTTATACCCCATCTAAAAATTTAAACTGTTATAATCTT--------------------TACACATAAAAAATTTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990142 245 -  90373283 GTTGGGGAAGGGAAAATAATAAAATACAATCAGGTGACAATAGACCTTCACAAAGTATTTAATTACAT-------------------CACATACATTAATGTTATTGCATTGTTTATTACTGAATTTATTTTGATGGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTCTTGCTCTACAGTAAAGTGATTGTATCTCATTTTCTTTTGTACCTCATCTAAAAATGTAAATTGTTATAATCTT--------------------TACACATAAAAAATTTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497618 245 +   7543664 GTTGGGGAAGAGAAAATAATAAAATACAATCAGGTGACAATAGACCTTCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGTTATTGTATTGTTTATTACTGAATTTATTTTAATGGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTTTTGCTCTACAGTAAAGAGATTGTATCTCATTTTCTTTTGTACCCCATCTAAAAATTTAAACTGTTATAATCTT--------------------TACACATAAAAAATTTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265667 245 -  13750039 GGTGGGAAAGGGAAAATAATAAAATACAATAAGGTGATAATAGACCTTCACAAAGTATTTAATTGCAT-------------------CACATACATTAATGTTATTGCATTGTTTATTACTGAATTTATTTTAATTGTAAATGTTTTAAAAATTTGAAACAAAAAATTGCCTCTTGCTCTATAGTAAAGAGATTGTATCTCATTTTCTTTTGTACCTCATCTAAAAATTTAAATTGTTATAATCTT--------------------TACACATAAAAAATTTTA
i colAng1.NW_012120598v1    C 0 C 0
s dasNov3.JH578070            2419331 249 +   3081153 ATTTGGGA---------AACAAAAT------GGGAGGTTATAGAAAGTTACAAAGAATCCAATTGTAT-------------------CATATGTATTATAGATATTTCTTTGCTTATGATTGATTTCTTCTTAACTGTAATAAGTTTAATAATTCTAAACAAAATATTCTCTCTTGACTGGTAACAGAGATGTTGTGCCTTATATTTTT-TATGTCTCTTCAAAAAATTTCCGTTTATATAATCTCTAAAGTTTATACAGGACCTATACAAGAAAACAGATTCA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23724256 971 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e canFam3.chr31              18066719 204 +  39895921 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=734764.000000
s hg38.chr21_GL383579v2_alt    127938 116 +    201197 ---TATCACTGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTTA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAATAGGAAATATTTAAAGGTTATTTTGTATATT----
s panTro5.chr21               8746767 116 +  33445071 ---TATCACTGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTTA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAATAGGAAATATTTAAAGGTTATTTTGTATATT----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285880 116 +  46275980 ---TATCACTGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTTA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAATAGGAAATATTTAAAGGTTATTTTGTATATT----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268437 116 -  13858734 ---TATCACTGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTTA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAATAGGAAATATTTAAAGGTTATTTTGTATATT----
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292810 116 +  32716333 ---TATCACAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ACTTTTA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTAAAGCTTATTTTGTATATT----
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706271 116 - 185818997 ---TATCTCAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTCA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTCAAGGTTATTTTGTATATT----
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167340950 116 - 192294377 ---TATCTCAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTCA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTCAAGGTTATTTTGTATATT----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977025 116 -  30496662 ---TATCTCAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTCA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTCAAGGTTATTTTGTATATT----
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489380 116 +  21915920 ---TATCGCAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTCA----TACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTAAAGGTTATTTTGTATATT----
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990387 116 -  90373283 ---TATCGCAGAGTATTACTTAATGTAGCAAATCTAGTCCTAA-ATTTTCA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTAAAGGTTATTTTGTATATT----
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497863 116 +   7543664 ---TATCGCAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTCA----TACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTAAAGGTTATTTTGTATATT----
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5265912 116 -  13750039 ---TATCGCAGAGTATTACTTAACGTAGCAAGTCTAGTCCTAA-ATTTTCA----CACCAAACAAGGCAAAACACCAAATCATTAATGAAAAGGAGGAAATATTTAAAGGTTATTTTGTATATT----
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18066923 112 +  39895921 ---TATCACAGACTATCAC--AAC--CATAAACATGTTCCTAATGCCTTTA----TAACAAAAACAGAGAAACAACTGATTATTAATAAAAAGATGATAAAATGTGAGTG-TATTTTGTATATA----
i canFam3.chr31             I 204 C 0
s dasNov3.JH578070            2419580 124 +   3081153 TGTTATCCCA-AGAATTATTTATAATTATAAGCATATCCCTAATACTCTTACAACCATCCAAAAAGGCAATTCACCAAATCATTTATGAAAAGGAAGAACAATGTAAG---tattatatatatttttt
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23724256 971 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=769322.000000
s hg38.chr21_GL383579v2_alt    128054 118 +    201197 ATTTTAA------------AATAAGTGTA---TTGTATGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGCTAAAATATATG----T----GAGTAATTTAATAAACCATGCATATTTCAAAAAA
s panTro5.chr21               8746883 118 +  33445071 ATTTTAA------------AATAAGTGTA---TTGTATGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGCTAAAATATATG----T----GAGTAATTTAGTAAACCATGCATATTTCAAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22285996 118 +  46275980 ATTTTAA------------AATAAGTGTA---TTGTATGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGCTAAAATATATG----T----GAGTAATTTAGTAAACCATGCATATTTCAAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268553 116 -  13858734 ATTTTAA------------AATAAGTGTA---TTATATGCA-----------------------GTAACCCAACATCAGAAAATTTG-AGAA--AATGTGCATAGA-TTGGCTAAAATATATG----T----GAGTAATTTAATAAACCATGCATATTTCAAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9292926 118 +  32716333 ATTTTAA------------AATAAATGTA---TTGTATGCA-----------------------GCAAACCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGCTAAAATATATG----T----GAGTAATTTAATAAACTATGTATATTTCAAAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706387 113 - 185818997 ATTTTAA------------AATAAACG--------TGTGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATATGGTTAAAATATATG----T----GAGTAATTTAATAAACCATGTATATTTCAAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341066 113 - 192294377 ATTTTAA------------AATAAACG--------TGTGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGTTAAAATATATG----T----GAGTAATTTAATAAACCATGTATATTTCAAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977141 113 -  30496662 ATTTTAA------------AATAAATG--------TGTGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGTTAAAATATATG----T----GAGTAATTTAATAAACCATGTATATTTGAAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489496 113 +  21915920 ATTTTAA------------AATAAATG--------TGTGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGTTAAAATATATG----T----GAATAATTTAATAAACCATGTATATTTCAAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990503 113 -  90373283 ATTTAAA------------AATAAATG--------TATGCA-----------------------GTAACCCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGTTAAAATATATG----G----GAGTAATTTAATAAACCATGTATATTTCAAAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3497979 113 +   7543664 ATTTTAA------------AATAAATG--------TGTGCA-----------------------GTAACTCAACATCAGAAAATTTGAAGAA--AATGTGCATAGATTTGGTTAAAATATATG----T----GAATAATTTAATAAACCATGTATATTTCAAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266028 113 -  13750039 ATTTTAA------------AATAAATG--------TATGCA-----------------------GTAACCCAGCTTCAGAAAATTTGAAGAA--AATGTTCATAGATTTGGTTAAAATATATG----T----GAGTAATTTAATAAACCATGTATATTTCAAAAAA
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23725227 122 +  47401472 ATTTTAA------------AATAAATGTA---TTTTAAGCA-----------------------ATAAACCAATATCAGAAAATTTGACAGA--AATATGGATAAATTTGGCTAAAATATAAATAATT----GAATAATTTAATAAACTATGTATAGTTCAAAAAA
i micMur3.chr31             I 971 I 840
s canFam3.chr31              18067035 124 +  39895921 ATTTTGG------------AATAAATGTA---TCTTAAGCA-----------------------AGAAACTCATATCAAAAATTTTGAAGGAAGAATATGAATAGATTTCACTAAAATAAAAG----TAATCAAGAAATTTAGTAAACCATGCTTATTTTTAAAAA
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2419704 159 +   3081153 attttaattgtaagtatattatagatgtaattatatatgtaatttttGATATATGTTTCCTGACATGAACTAATGTCAGGAAACTT-AACAG--AATGCATATTGATTTGGCTAATATATAAC----TAATCTAGAAATTTACAAAACTGTTTGTATTCCAATAAA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=594605.000000
s hg38.chr21_GL383579v2_alt    128172 101 +    201197 GGAC-----------ATTGATTAAAAGGC-AA-TATAGTGCCAG-AAAACAAAAATCTGAAAATTTATATGCCACAGCAGCATTAATAACCATAACATAAATAAGGAAAATATTT
s panTro5.chr21               8747001 101 +  33445071 GGAC-----------ATTGATTAAAAGGC-AA-TATAGTGCCAG-AAAACAAAAATCTGAAAATTTATATGCCACAGCAGCATTAATAACCATAACATAAATAAGGAAAATATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286114 101 +  46275980 GGAC-----------ATTGATTAAAAGGC-AA-TATAGTGCCAG-AAAACAAAAATCTGAAAATTTATATGCCACAGCAGCATTAATAACCATAACATAAATAAGGAAAATATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268669 101 -  13858734 GGAC-----------ATTGATTAAAAGGC-AA-TATAGTGCCAG-AAAACAAAAATCTGAAAATTTATATGCCACAGCAGCATTAATAACCATAACATAAATAAGGAAAATATTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293044  99 +  32716333 GGAC-----------ATTGATTGAAAGGC-AA-TATAGTGCCAG-AAA--AAAAATCTGAAAATTTATATGCCACAGCAGCATTAATAACCATAATATAAATAAGGAAAATATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706500  95 - 185818997 GGAC---------------ATTGAAAGGC-AA-TATAGTGCCAG-AAA--AAAAATCTGGAAATTTATATGCCACAGCAGCATTAATAACCATAATATAAATAAGGAAAATATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341179  95 - 192294377 GGAC---------------ATTGAAAGGC-AA-TATAGTGCCAG-AAA--AAAAATCTGGAAATTTATATGCCACAGCAGCATTAATAACCATAATATAAATAAGGAAAATATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977254  95 -  30496662 GGAC---------------ATTGAAAGGC-AA-TATAGTGCCAG-AAA--AAAAATCTGGAAATTTATATGCCACAGCAGCATTAATAACCATAATATAAATAAGGAAAATATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489609  95 +  21915920 GGAC---------------ATTGAAAGGC-AA-TATAGTGCCAG-AAA--AAAAATCTGGAAATTTATATGCCACAGCAGCATTAATAACCATAATATAAATAAGGAAAATATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990616 100 -  90373283 GGAC-----------ATTGATTGAAAGGC-AA-TATAGTGCCAGAAAA--AAAAATCTGAAAATGTATATGCCACAGCAGCATTGATAACCATAATCTAAATAAGGAAAATATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498092  95 +   7543664 GGAC---------------ATTGAAAGGC-AA-TATAGTGCCAG-AAA--AAAAATCTGGAAATTTATACGCCACAGCAGCATTAATAACCATAATATAAAAAAGGAAAATATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266141 100 -  13750039 GGAC-----------ATTGATTGAAAGGC-AA-TATAGTGCCAGAAAA--AAAAATCTGAAAATTTATATGCCACAGCAGCATTAATAACCATAATATAAATAAGGAAAATATTT
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18067161 102 +  39895921 GAATGTT-------AACTAATTATAAGGCAAA-GATAGTACTAG-AA---AGGTATCTGAAAATGTATATATCACAGCAAGATTAA-AGCTATACAATACATAAGAAAAATATTT
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2419863 105 +   3081153 ------CGAGTCTAAACTAATTAAAAGAC-AAGTGAAATATAAG-GGA--AAATATTTGAAAACTGATATGCTAAGGTAGGATTAATAGATATGCAATTAATAGGAAAAATACTC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e calJac3.chr21              26524725 665 +  50472720 I
e saiBol1.JH378168            8705680 221 +  13128814 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=108502.000000
s hg38.chr21_GL383579v2_alt    128273 22 +    201197 AAAAAATTCTAATAAAATTAG-----A
s panTro5.chr21               8747102 22 +  33445071 AAAAAATTGTAATAAAATTAG-----A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286215 22 +  46275980 TAAAAATTGTAATAAAATTAG-----A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268770 27 -  13858734 AAAAATTTCTAATAAAATTAGACAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293143 22 +  32716333 AAAAATATCTAATAAAATTAG-----A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706595 22 - 185818997 TTAAAAATCTAATAAAATTAG-----A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341274 22 - 192294377 TTTAAAATCTAATAAAATTAG-----A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977349 22 -  30496662 TTAAAAATCTAATAAAATTAG-----A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489704 22 +  21915920 TTAAAAATCTAATAAAATTAG-----A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990716 18 -  90373283 TAAAATATCTAATAAATT---------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498187 22 +   7543664 TTAAAAATCTAATAAAATTAG-----A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266241 22 -  13750039 AAAATTATCTGATAAAATTAG-----A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525390 22 +  50472720 AAAAAAATCTAATAAAATTAG-----A
i calJac3.chr21             I 665 C 0
s saiBol1.JH378168            8705901 22 +  13128814 AAAAAAATCTAATAAAATTAG-----A
i saiBol1.JH378168          I 221 C 0
s canFam3.chr31              18067263 21 +  39895921 -TTAATATCCAAGCAAATTAG-----A
i canFam3.chr31             C 0 I 23
s dasNov3.JH578070            2419968 20 +   3081153 CTAAATATCAAGAAAAAGAA-------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I
e otoGar3.GL873528           13893118 5759 +  38779656 I

a score=53300.000000
s hg38.chr21_GL383579v2_alt    128295 12 +    201197 CAA----AAAATATGA---------------
s panTro5.chr21               8747124 12 +  33445071 CAA----AAAATATGA---------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286237 12 +  46275980 CAA----AAAATATGA---------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268797 12 -  13858734 CAA----AAAATATGA---------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293165 15 +  32716333 CAAAAC-AAAGTGTGA---------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706617 15 - 185818997 GAAAAC-AAAAAATGA---------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341296 15 - 192294377 GAAAAC-AAAAAATGA---------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977371 15 -  30496662 GAAAAC-AAAAAATGA---------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489726 15 +  21915920 GAAAAC-AAAAAATGA---------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990734 13 -  90373283 --AGAC-AAAAAACGA---------------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498209 15 +   7543664 GAAAAC-AAAAAATGA---------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266263 15 -  13750039 CAAAAC-AAAAAATGA---------------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525412 16 +  50472720 CAAAACAAAAAAATCA---------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8705923 15 +  13128814 CAAAAC-AAAAAATAT---------------
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24894133 10 -  38779656 -----C-AAAAAATTT---------------
i otoGar3.GL873528          I 5759 I 2
s canFam3.chr31              18067307 15 +  39895921 aaaaga-aaaaaaTAA---------------
i canFam3.chr31             I 23 I 10
s dasNov3.JH578070            2419988 25 +   3081153 -----C-AAAAAATAGGCAACAAGaaaaaaa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9171618 352 -   9889416 I

a score=361280.000000
s hg38.chr21_GL383579v2_alt    128307 41 +    201197 -TTAAAAATG--CCAaattttcaatatcttaaaatgtctaata--a-
s panTro5.chr21               8747136 41 +  33445071 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATA--A-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286249 41 +  46275980 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATA--A-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268809 40 -  13858734 -TTAAAAATG---CAAATTTTCAATATCTTAAAATGTCTAATA--A-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293180 41 +  32716333 -TTAAAAATG--CCAAGTTTTTAATATCTTAAAATGTCTAATA--A-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706632 40 - 185818997 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATA----
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341311 40 - 192294377 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATA----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977386 38 -  30496662 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAA------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489741 40 +  21915920 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATA----
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990747 41 -  90373283 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATAG---
i chlSab2.chr2              C 0 I 38
s manLeu1.NW_012103476v1      3498224 41 +   7543664 -TTAAAAATG--CCAAATTTTCAATATCTTAAAATGTCTAATAG---
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266278 41 -  13750039 -TTAAAACTG--CCAAATTTTCAATATCTTAAAATGTCTAATA-G--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525428 40 +  50472720 -TATAAAATG--CCAAATTTCCAATATCTGAAAATGTCtaaaa----
i calJac3.chr21             C 0 I 1
s saiBol1.JH378168            8705938 40 +  13128814 -TTTAAAATG--CCAAATTTTCAATATCTGAAAATGTCTAAAA----
i saiBol1.JH378168          C 0 I 1
s aotNan1.NW_018487195v1      9171970 40 -   9889416 -TTAAAAATG--CCAAATTTTCAATATCTGAAAATGTCTAAAA----
i aotNan1.NW_018487195v1    I 352 I 1
s otoGar3.GL873528           24894145 39 -  38779656 -AAAGAGATG--CCAAATTTTAAACTTCT-AAAATTTCCAAGA----
i otoGar3.GL873528          I 2 I 1
s canFam3.chr31              18067332 40 +  39895921 -ATATAAATG--CCAAATTTCAAATACTCCAAAATGTCCAACA----
i canFam3.chr31             I 10 I 1
s dasNov3.JH578070            2420013 44 +   3081153 tataaaagtgtattaaatttcaaatattttaaaaattCCAACA---G
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I

a score=10200.000000
s hg38.chr21_GL383579v2_alt    128348 2 +    201197 ta
s panTro5.chr21               8747177 2 +  33445071 TA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286290 2 +  46275980 TA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268849 2 -  13858734 TA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293221 2 +  32716333 CA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706672 2 - 185818997 CA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341351 2 - 192294377 CA
i macFas5.chr3              C 0 C 0
s cerAty1.NW_012002954v1     13489781 2 +  21915920 GA
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3498265 1 +   7543664 -A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266319 1 -  13750039 -A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525469 2 +  50472720 ta
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8705979 2 +  13128814 TA
i saiBol1.JH378168          I 1 C 0
s aotNan1.NW_018487195v1      9172011 2 -   9889416 TA
i aotNan1.NW_018487195v1    I 1 I 14
s otoGar3.GL873528           24894185 2 -  38779656 TA
i otoGar3.GL873528          I 1 I 2
s canFam3.chr31              18067373 2 +  39895921 TA
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2420057 2 +   3081153 TG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e macNem1.NW_012015021v1      4977424 0 -  30496662 C
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e chlSab2.chr2               19990788 38 -  90373283 I

a score=30285.000000
s hg38.chr21_GL383579v2_alt    128350  9 +    201197 --gtcgttatt
s panTro5.chr21               8747179  9 +  33445071 --GTCGTTATT
i panTro5.chr21             C 0 I 2
s panPan2.chr21              22286292  9 +  46275980 --GTCGTTATT
i panPan2.chr21             C 0 I 2
s gorGor5.CYUI01015003v1      8268851  9 -  13858734 --GTCGTTATT
i gorGor5.CYUI01015003v1    C 0 I 2
s nomLeu3.chr25               9293223  7 +  32716333 --G--ATTGTT
i nomLeu3.chr25             C 0 I 2
s rheMac8.chr3              160706674  9 - 185818997 --GTAGTTATT
i rheMac8.chr3              C 0 I 2
s macFas5.chr3              167341353  9 - 192294377 --GTAGTTATT
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      4977424  8 -  30496662 ---TAGTTATT
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13489783  9 +  21915920 --GTAGTTATT
i cerAty1.NW_012002954v1    C 0 I 2
s manLeu1.NW_012103476v1      3498266  9 +   7543664 --GTAGTTATT
i manLeu1.NW_012103476v1    C 0 I 2
s colAng1.NW_012120598v1      5266320  9 -  13750039 --GTAGTTATT
i colAng1.NW_012120598v1    C 0 I 2
s calJac3.chr21              26525471  8 +  50472720 ---tcataatt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8705981  8 +  13128814 ---TCGtaatt
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24894189  9 -  38779656 --GTAGTTATT
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              18067375  7 +  39895921 ----GACTAGT
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2420059 11 +   3081153 GGGTAGTGATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9172013 14 -   9889416 I
e chlSab2.chr2               19990788 38 -  90373283 I

a score=8499.000000
s hg38.chr21_GL383579v2_alt    128359 2 +    201197 gt
s panTro5.chr21               8747190 2 +  33445071 GT
i panTro5.chr21             I 2 C 0
s panPan2.chr21              22286303 2 +  46275980 GT
i panPan2.chr21             I 2 C 0
s gorGor5.CYUI01015003v1      8268862 2 -  13858734 GT
i gorGor5.CYUI01015003v1    I 2 C 0
s nomLeu3.chr25               9293232 2 +  32716333 AT
i nomLeu3.chr25             I 2 C 0
s rheMac8.chr3              160706685 2 - 185818997 AT
i rheMac8.chr3              I 2 C 0
s macFas5.chr3              167341364 2 - 192294377 AT
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      4977434 2 -  30496662 AT
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13489794 2 +  21915920 AT
i cerAty1.NW_012002954v1    I 2 C 0
s chlSab2.chr2               19990826 2 -  90373283 AT
i chlSab2.chr2              I 38 C 0
s manLeu1.NW_012103476v1      3498277 2 +   7543664 AT
i manLeu1.NW_012103476v1    I 2 C 0
s colAng1.NW_012120598v1      5266331 2 -  13750039 AT
i colAng1.NW_012120598v1    I 2 C 0
s calJac3.chr21              26525479 2 +  50472720 gt
i calJac3.chr21             C 0 I 7
s saiBol1.JH378168            8705989 2 +  13128814 at
i saiBol1.JH378168          C 0 I 7
s otoGar3.GL873528           24894198 2 -  38779656 AT
i otoGar3.GL873528          C 0 I 4
s canFam3.chr31              18067383 1 +  39895921 G-
i canFam3.chr31             I 1 I 8
s dasNov3.JH578070            2420070 2 +   3081153 AT
i dasNov3.JH578070          C 0 I 4
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9172013 14 -   9889416 I

a score=606232.000000
s hg38.chr21_GL383579v2_alt    128361  70 +    201197 ttatatttaataattCCAAAAATATT----------------------------------------------------------ATTTTTCAATGATAGTCTTTTACATAGA----AAACAG--------ATTACAAAAT
s panTro5.chr21               8747192  70 +  33445071 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAATGATAGTCTTTTACATAGA----AAACAG--------ATTACAAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286305  70 +  46275980 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAATGATAGTCTTTTACATAGA----AAACAG--------ATTACAAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268864  61 -  13858734 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTC-ATGATAGTCTTTTACATAGA----AAACAG----------------AT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293234  78 +  32716333 CTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAATGATAGTCTTTTACATAGA----AAACAGATTACAAAATTACAAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706687  78 - 185818997 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAAAGATAGTCTTTTACACAGA----AAACAGATTACAAAATTACAAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341366  78 - 192294377 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAAAGATAGTCTTTTACACAGA----AAACAGATTACAAAATTACAAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977436  78 -  30496662 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAAAGATAGTCTTTTACACAGA----AAACAGATTACAAAATTACAAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489796  78 +  21915920 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAAAGATAGTCTTTTACACAGA----AAACAGATTACAAAATTACAAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990828  78 -  90373283 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAATGATAGTCTTTTACACAGA----AAACAGATTACAAAATTACAAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498279  78 +   7543664 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAAAGATAGTCTTTTACACAGA----AAACAGATTACAAAATTACAAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266333  78 -  13750039 TTATATTTAATAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAATGATAGTCTTTTACATAGA----AAACAGATTACAAAATTACAAAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525488  67 +  50472720 ttaaatttagtaattccaaaaatatt----------------------------------------------------------attttt------taGTCTATTA-ATAGATAAAAAACAG--------ATTACAAAAT
i calJac3.chr21             I 7 I 8
s saiBol1.JH378168            8705998  71 +  13128814 ttaaatttagtaattccaaaaatatt----------------------------------------------------------attttttaatGATAGTCTATTACATAGAT---AAACAG--------ATTACAAAAT
i saiBol1.JH378168          I 7 I 8
s aotNan1.NW_018487195v1      9172027  74 -   9889416 TTAAATTTAGTAATTCCAAAAATATT----------------------------------------------------------ATTTTTCAGTGATAGTCTATTACATAGATAAAAAACAG--------ATTACAAAAT
i aotNan1.NW_018487195v1    I 14 I 59
s otoGar3.GL873528           24894204 120 -  38779656 TAATGTTAAATCATGCCAGAAATGTTATAAAATGTGATCACTCAATAATGACA-----------GTTCATTTGATGACAGGT-CATTTTTCAATGATAGTCTTTTACATAGATATAAAACAG--------ATTACAAAAT
i otoGar3.GL873528          I 4 C 0
s canFam3.chr31              18067392 123 +  39895921 TTTTGCTTAACCATGCTAAAGATGTT-----ATGTGATCCTTAAATGATACTA----GTGATATGTTCATTGATTAACAGGGACATTTCTCAATGATGATCTTTTACATGGATATAAAACAG--------AACATAGAAC
i canFam3.chr31             I 8 C 0
s dasNov3.JH578070            2420076 126 +   3081153 TAATGTTTAATCAGGCCAGAAATATT-----GTGGTACCACTAAATGGTGATGAGAAATGTTATGGTTATTCATTAACAGGGAAATCTTCCAATGGTAGTTTTTT-CACAGATATCAAATAG--------ATTGCAAGAG
i dasNov3.JH578070          I 4 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I

a score=174208.000000
s hg38.chr21_GL383579v2_alt    128431 34 +    201197 -GGCAACTCTATTATG---------ATACT-----TAA-------------AAAAAATTATC
s panTro5.chr21               8747262 33 +  33445071 -AGCAACTCTATTATG---------ATACT-----TAA-------------AAAAA-TTATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286375 33 +  46275980 -AGCAACTCTATTATG---------ATACT-----TAA-------------AAAAA-TTATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268925 34 -  13858734 -GGCAACTCTATTATG---------ATACT-----TAA-------------AAAAAATTATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293312 28 +  32716333 -GGCAACCCTATTATG---------ATACT-----TAA-------------AAAAA------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706765 34 - 185818997 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAAAAATTCTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341444 34 - 192294377 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAAAAATTCTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977514 34 -  30496662 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAAAAATTCTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489874 34 +  21915920 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAAAAATTCTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990906 34 -  90373283 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAGAAATTCTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498357 34 +   7543664 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAAAAATTCTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266411 34 -  13750039 -GGCAACCCTATTATG---------ATACT-----CAA-------------AAAAAATTCTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525563 51 +  50472720 -GGCAACCCTATTACA---------ATGCTATATGTAACCCTATTACGAT-AAAAAATTCTG
i calJac3.chr21             I 8 C 0
s saiBol1.JH378168            8706077 52 +  13128814 -GGCAACCCTATTACA---------ATGTTATGTGTAACCCTATTATGGTAAAAAAATTCTG
i saiBol1.JH378168          I 8 C 0
s otoGar3.GL873528           24894324 43 -  38779656 -GTCACGCATACTATAACATATTACATACC-----TTA-------------AAACAATTCTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18067515 39 +  39895921 -AGCATGCATGTAATA----TGTGTGCATG-----TAT-------------AATGTATTTTT
i canFam3.chr31             C 0 I 4
s dasNov3.JH578070            2420202 34 +   3081153 TGTATATTTTATGATA---------TGATT-----TAA-------------AAAATAAACA-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I
e aotNan1.NW_018487195v1      9172101 59 -   9889416 I

a score=49959.000000
s hg38.chr21_GL383579v2_alt    128465 5 +    201197 TTATG
s panTro5.chr21               8747295 5 +  33445071 TTATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286408 5 +  46275980 TTATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268959 5 -  13858734 TTATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293340 5 +  32716333 TTATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706799 5 - 185818997 TTATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341478 5 - 192294377 TTATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977548 5 -  30496662 TTATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489908 5 +  21915920 TTATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990940 5 -  90373283 TTCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498391 5 +   7543664 TTATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266445 5 -  13750039 TTATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525614 5 +  50472720 TTATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8706129 5 +  13128814 TTATG
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9172160 5 -   9889416 TTATG
i aotNan1.NW_018487195v1    I 59 C 0
s otoGar3.GL873528           24894367 4 -  38779656 -TTTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18067558 5 +  39895921 ATATG
i canFam3.chr31             I 4 I 4
s dasNov3.JH578070            2420236 5 +   3081153 GTATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I
e cebCap1.NW_016107322v1     13949119 550 -  14377064 I

a score=4981196.000000
s hg38.chr21_GL383579v2_alt    128470 488 +    201197  
s panTro5.chr21               8747300 487 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286413 488 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8268964 488 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293345 490 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160706804 499 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341483 499 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4977553 499 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13489913 499 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19990945 499 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498396 499 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266450 499 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26525619 491 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8706134 494 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13949669 494 -  14377064  
i cebCap1.NW_016107322v1    I 550 C 0
s aotNan1.NW_018487195v1      9172165 494 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24894371 460 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18067567 608 +  39895921  
i canFam3.chr31             I 4 C 0
s dasNov3.JH578070            2420241 618 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23725349 840 +  47401472 I

a score=5781392.000000
s hg38.chr21_GL383579v2_alt    128958 413 +    201197 AAAACAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTCCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAATCATATTTGTAGTTTTTGAAGTAAATCAGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TTAAAATGAAATGCATAGAAATATTTATA-TA-AAAAA-TGATCACTTATATCAGGTGCTATA---TTAACATTTTAAAGATCTAAATTCA-TA
s panTro5.chr21               8747787 413 +  33445071 AAAACAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTCCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAATCATATTTGTAGTTTTTGAAGTAAATCAGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TTAAAATGAAATGCATAGAAATATTTGTA-TA-AAAAA-TGATCACTTATATCAGGTGCTATA---TTAACATTTTAAAGATCTAAATTCA-TA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22286901 413 +  46275980 AAAACAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTCCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAATCATATTTGTAGTTTTTGAAGTAAATCAGATACTTTTCAACT---ATAACCACAAAGGGTCAGATAAGTAAGAAGAAATAATACAAGGCAATTT-TTAAAATGAAATGCATAGAAATATTTGTA-TA-AAAAA-TGATCACTTATATCAGGTGCTATA---TTAACATTTTAAAGATCTAAATTCA-TA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8269452 414 -  13858734 AAAACAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTAGTCTTCA-TCTGCTATTCACTATATTTGTGATGCAAATTTTCATATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAATCATATTTGTA-TTTTTGAAGTAAATCAGATACTTTTCAACT---GTAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TTAAAATGAAATGCATAGAAATATTTGTATTA-AAAAA-TGATCACTTATATCAGGTGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9293835 414 +  32716333 AAACCAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTAGTCTTCA-TCAGCTATTCATTATATTTGGGATGCAAATTTTCCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAATCATATTTGTAGTTTTCGAAGTAAGCCGGATACTTTTCAACA---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TTAAAATGAAATGCATAGAAATATTTATA-TA-AAAAA-TTATCACTTATATCAGATGCTCTA---TTAACATTTTAAAGATCTAAATTCATTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160707303 413 - 185818997 AATACAAAATTGTCTTGAGATTTATAGTTCACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTTCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTTGAAA-AAATCGGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TAAAAATGAAAAGCATAGAAATATTGATA-TA-AAAAA-TGATCACTTATATCAGATGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167341982 413 - 192294377 AATACAAAATTGTCTTGAGATTTATAGTTCACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTTCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTGGAAA-AAATCGGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TAAAAATGAAATGCATAGAAATATTGATA-TA-AAAAA-TGATCACTTATATCAGATGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978052 413 -  30496662 AATACAAAATTGTCTTGAGATTTATAGTTCACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTTCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTTGAAA-AAATCGGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TAAAAATGAAATGCATAGAAATATTGATA-TA-AAAAA-TGATCACTTATATCAGATGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13490412 413 +  21915920 AAAACAAAATTGTCTTGAGATTTATAGTTCACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTGTATTTGTGATGCAAATTTTTCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTTGAAA-AAATCGGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TAAAAATGAAATGCATAGAAATATTGATA-TA-AAAAA-TGATCCCTTATATCAGATGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19991444 413 -  90373283 AAAACAAAATTGTCTTGAGATTTATAGTTAACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTTCTATATGTCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAACATAATTGG-AAAAGACTTGTTTAATTATAAAACTTAGGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTTGAAA-AAATCGGATCCTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TAAAAATGAAATGCATAGAAATATTGATA-TA-AAAAA-AGATCACTTATATCAGATGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3498895 413 +   7543664 AAAACAAAATTGTCTTGAGATTTATAGTTCACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTTCTATATGCCATATGTGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTTGAAA-AAATCGGATACTTTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-TAAAAATGAAATGCATAGAAATATTGATA-TA-AAAAA-TGATCACTTATATCAGATGCTATA---TTAACATTTTAAAGATCTAAATTCATTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5266949 412 -  13750039 AAAACAAAATTGTCTTGAGATTTATAGTTAACAACTTTTACAATTAGTCTTCA-TCAGCTATTCACTATATTTGTGATGCAGATTTTTCTATATGCCGTATGCGTATTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGACTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAGTCATATTTGTAGTTTTTGAAA-AAATCGGATACTCTTCAACT---ATAACCACAAAGGGTCAGGTAAGTAAGAAGAAATAATACAAGGCAATTT-AAAAAATCAAATGCATAGAAATATTTATA-T--AAAAA-TGATCACTTATATCAGATGCTATA---TTAACACTTTAAAGATCTAAATTCATTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26526110 415 +  50472720 AAAACAAAATTGTCTTGACATTTATAGTTATCAACTTTTACAATTATTCTTCA-TTAGCTATTCACTATATTTGTGAGGCAAATTTTCTGGTATGCCATGTGTATGTTGGCCAGAAGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTCATTGG-GAAAGATTTGTTTAATTATAAAACTTATGGACGTAAAACATCCATCTGAGCAATGATATTTGTAGTTTTTGAAGTAAATCACATACTTTGCATCT---ATAACCACAAACAGTCAGGTAAGTGAGAAAATATACTAAAAGGCAATTT-TAAAAATAAAATGCATAGAAATATTTATA-TG-AAAAATTTATAACCTATATCAGATGCCATA---TTAACATTTTAAATATCTAAATTCATAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8706628 414 +  13128814 GAAACAAAATTGTCTGGAGATTTATAGTTACCAACTTTTACAATTATTCTTCA-TCAGCTAGTCCCTACATTTGTGAGGCAAATTTTCTGGTATGCCATATGTATATTGGCCAGAAGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGATTTGTTTAATTATAAAACTTATGGAAGTAAAACATCCGTCTGTGCAATGATATTTGTAGTTTTTGAAGTAAACCAGATACTTTCCAACT---ATAACAACAAACAGTCAGGTATGTAAGAAGACATACTAAAAGGTAATCT-AAAAAATGAAATGCATAGAAATATTTATA-TG-AAAAA-TTATGACCTATATCAGATGCCATA---TTAACATTTTAAAGATCTAAATTCATAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13950163 410 -  14377064 AAAACAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTATTCTTCA-TCAGCTATTCACTATATTTGTGAGGCAAATTTTCTGGTATGCCATATGTATATTGGCTAGAAGAATAGTGATTAAGATTTAGAGAAGAATTTAACAATATTTATGCTAATCTCTCAACAATGTAATTGG-AAAAGA----TTTAATTATAAAACTTATGGAAGTAAAACATCCATCTGTGCAATGATATTTGTAG-TTTTGAAGTATATCAGATACTTTCCAACT---ATAACCACAAACAGTTGGGTAAGTAAGAAGACACATTAAAAGGTAATTT-AAAAAATAAAATGCATAGAAATATTTATA-TG-AAAAAATTATGACCTATATCAGATGCCATA---TTAACATTTTAAAGATCTAAATTCATAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9172659 414 -   9889416 AAAACAAAATTGTCTTGAGATTTATAGTTACCAACTTTTACAATTATTCTTCA-TCAGCTATTCACTGTATTTGTGAGGCAAACTTTCTAGTATGCCATATGTATATTGGCCAGAAGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTCTCAACAGTGTAATTGG-AAAAGATTTGCTTAATTGTAAGACTTATGGACGTAAAACATCCATCTGTGCAATGATATTTGTAGTTTTTGAAGTAAATTACATACTTTCCAACT---ATAACCACCAACAGTCAGGTAAGTAAGAAGACATACTAAAAGGCAATTT-TAAAAAT-AAATTCATAGAAATATTTATA-TG-AAAAAATTATGACCTATATCAGATGCCATA---TTAACATTTTAAAGATCTAAATTCATAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23726189 413 +  47401472 AAAACAAAATGGTCTTGAGATTTATAGTTACCAACTTTTACAATTACTCTTCA-TCAGCTATTCACTATATTTGTGATGCAAATTTTCTTATATGCCATATGTGTATTGGACAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAGCAATATTTATGCTAATCTCTCATTGATGTAATTGG-AAAAGTCTTGATTAATTATACAACTTATGGAAGTAAAACATCCATCTGTGCCTTCATATTTGTAGATTTTGAAGTAAATTGGATGCTTTCCAACT---ACAACCACAAAATGTCAAGTAAGTCAGGAAAAATAACGCAAAACAATTT-ATGCAAAGAATTGCATAAAAATATTTACA-TG-AAAAA-CTGTCACATATATCAGATGACATT---TTAACCTTTAAAAGATATAAATTCATA-
i micMur3.chr31             I 840 I 155
s otoGar3.GL873528           24894831 413 -  38779656 ---ACAAAATTGTCTTGAGATTTATAGTTATCAAC-TTTACAATTACTCTTCA-TCAGCCATTCACTATATTTGTGATGCAAATTTTCTTATATGCCATATGTGTATTGGCCAGATGAATGGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAATCTGTCATCAATGTAATTGGAAAAAGTCTTGATTAATTATACAACTTATGGAAGTAAAACTTCCATCTGTGACATTATATTTGTAGATTTTGAAGTAAGTTGGATGCTTTCCAACTATAATAACCTCAAAGAGTCAAGTAAGTCAGGAAAAATAAGGCAAACCAATTT--TAAAAGGAATTACATAAAAATATTTACA-TGAAAAAA-TTGTCACATTCATCAGATAATGTT---TTAACATTTAAAAGATAGAGATTCTTA-
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18068175 415 +  39895921 AAACCAAAATTGGCTTCAGAGTTATGGTTACCAACATCTACAACTACTCTTTA-TCAGCAATTTACTGTATTTGTGATGCAAATTTTCCTGTATGCCATATGTGCACTGGCCAGATGAATAGTGATTAAGATTTAGAAAAGAATTTAACAATATTTATGCTAACCACTCAACAATGTAATTGG-AAAAGTCTTGATTAATTATACAGCTTTGGAAAGTAAAACATCCATCTGTGCCATCACATTTGTAGTTTTTGAAGTAAATTGAATGCTTTCTAACT---ATAACCACAAACGGTCAGGTAAATCAGGCCATATAATGAAAGGCAATTT-TAAAAATGAAATGTATGGAAAAATTAACA-TG-GAAAA-CTGTCATGTATATCAGATAATATA--CTTAACCTTCAAAAGATGTAAATTTATAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2420859 405 +   3081153 ----CAAAATTGGCTTGAGAATTATGGCTG-TAATTTTTGCAACTACTGTTTATTCAACTATTCTCTATATTTGTGATGCTAATTTTCCTTTATGCCATATGTGTATTGGCCAGATGAATAGTGATTACGGTTTAGGAAAGAATTTAACAATATTTATGCTAACCACTCAACAATGTAATTGG-GAAATTCTTGATTAATTATACAACTTATGGAAGTAAAACATCCATCTGTGCCATTGCATTTGTAGTTTTTATAGTAACTTGCATGCTTTTCATTT---ATAACCACAGA--GTCAGGTAAGCCAGGCAGTAAAATGCAATGCAATTTTTAAAAATGAAGTGTATAAAAACA----CA-TG-AAAAC-TG---TCATATAATTAGTGCAATATATTTAACCTTTTGAAGATATAAACTTGTAA
i dasNov3.JH578070          C 0 C 0

a score=414491.000000
s hg38.chr21_GL383579v2_alt    129371 37 +    201197 TTATACCAATAAAAA-----AGAAGA-----CATAAAATCAATTTAT
s panTro5.chr21               8748200 37 +  33445071 TTATACCAATAAAAA-----AGAAGA-----CATAAAATCAATTTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287314 37 +  46275980 TTATACCAATAAAAA-----AGAAGA-----CATAAAATCAATTTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8269866 37 -  13858734 TTATACCAATAAAAA-----AGAAGA-----CATAAAATCAATTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294249 37 +  32716333 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAATTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160707716 37 - 185818997 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342395 37 - 192294377 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978465 37 -  30496662 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13490825 37 +  21915920 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19991857 37 -  90373283 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499308 37 +   7543664 TTATACCAATAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267361 37 -  13750039 TTATATCACTAAAAT-----AGAAGA-----CATAAAATCAGTTTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26526525 37 +  50472720 TTATACTAATAAAAT-----AGGAGA-----TGTAAAATTAATTTAT
i calJac3.chr21             C 0 I 42
s saiBol1.JH378168            8707042 37 +  13128814 TTATACTAATAAAAT-----AGGAGA-----TGTAAAATCAATTTAT
i saiBol1.JH378168          C 0 I 42
s cebCap1.NW_016107322v1     13950573 37 -  14377064 TTATACTAATGAAGT-----AGGAGA-----TGTAAAATCAATTTAT
i cebCap1.NW_016107322v1    C 0 I 42
s aotNan1.NW_018487195v1      9173073 37 -   9889416 TTATACTAATAAAAT-----AGGAGA-----TGTAAAATCAATTTAT
i aotNan1.NW_018487195v1    C 0 I 255
s otoGar3.GL873528           24895245 36 -  38779656 TTACTAAAATAGGCT-----ATTTTA-----TATGAAATCAATTTC-
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18068590 42 +  39895921 TTACACAAATAAAAT-----AGGCTATGTTGTATAAAATCAATTTAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2421264 42 +   3081153 TTACACTAGTAAAATTAGCAATGTTA-----TATAAAATCAATTTGT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23726602 155 +  47401472 I

a score=1156810.000000
s hg38.chr21_GL383579v2_alt    129408 111 +    201197 GTCTCCTATGAAAA-TACTGTAGTCATTAACATTATAATGGCTTACTTTATCAACACTCTTATTACCAA---A---ATAAGTGCATTGAGTAACCTCTGATTTTTAAAATCAATAAAA
s panTro5.chr21               8748237 111 +  33445071 GTCTCCTGTGAAAA-TACAGTAGTCATTAACATTATAATGGCTTACTTTATCAACACTCTTATTACCAA---A---ATAAGTGCATTGAGTATCCTCTGATTTTTAAAATCCAAAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287351 111 +  46275980 GTCTCCTGTGAAAA-TACAGTAGTCATTAACATTATAATGGCTTACTTTATCAACACTCTTATTACCAA---A---ATAAGTGCATTGAGTATCCTCTGATTTTTAAAATCCAAAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8269903 111 -  13858734 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAATGGCTTACTTTATCAACACTCTTATTACCAA---A---ATAAGTGCATTGAGTATCCTCTGATTTTTAAAATCAAAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294286 110 +  32716333 GTCTACTGTGAAAA-TTCTATAGTCATTAGCATTATAATAGCTTACTTTATCAACACTCTTATTACCAA---A---ATAAGTGCATTGAATATCCTCTGATTTTTAAAAT-AAAAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160707753 111 - 185818997 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAAGAGCTTACTTTATCAACACTCTTATTACCAA---A---ATGAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342432 111 - 192294377 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAAGAGCTTACTTTATCAACACTCTTATTACCAA---A---ATGAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978502 111 -  30496662 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAAGAGCTTACTTTATCAACACTCTTATTACCAA---A---ACGAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13490862 111 +  21915920 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAAGAGCTTACTTTATCAACACTCTTATTACCAA---A---ATGAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19991894 111 -  90373283 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAATAGCTTACTTTATCAACACCCTTATTACCAA---A---ATAAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499345 111 +   7543664 GTCTCCTGTGAAAA-TACTATAGTCATTAACCTTATAAGAGCTTACTTTATCAACACTCTTATTACCAA---A---ATGAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267398 111 -  13750039 GTCTCCTGTGAAAA-TACTATAGTCATTAACATTATAATAGCTTACTTTATCAACACTGTTATTACCAA---A---ATAAGTGCATTGAATATCCTCTGATTTTTAAAATCAAAAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26526604 111 +  50472720 GCCTCTTGTGAAAA-TACTATAGTCATTAAAATTATAATAGCTTATTTTAGCAACTTTTTTATTAACAA---A---ATAAGTGCATTGAATATCCTCTGGTTTTTAAATTCCCAAAAT
i calJac3.chr21             I 42 C 0
s saiBol1.JH378168            8707121 111 +  13128814 GCCTGTTGTGAAAA-TATTATAGTCATTAACATTATAATAGCTTGTTTTAGCAACACTTTTATTACCAA---A---ATAAGTGCATTGAATATCCTCTGATTTTTAAATTCCAAAATT
i saiBol1.JH378168          I 42 C 0
s cebCap1.NW_016107322v1     13950652  83 -  14377064 GCCTCTTGTGAAAA-TACTATAGTCATTAACATTATAATAGCTTGTTTTAGCAACACTTTTATTACCAA---A---GTAAGTGCATTGAA----------------------------
i cebCap1.NW_016107322v1    I 42 C 0
s otoGar3.GL873528           24895281 114 -  38779656 -TCTCCTGTGAAAATTATTGTAGACATCAACATTAAAATAGCTTATATTTTCAATATTTTTATTACCAACATG---ATAAGTGCATTGATGATTCTCttatttttaaaattttaaaag
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18068632 110 +  39895921 GTCTCCTGTGAAAGTTACTGTAGTCATTAACATTGTAGTAGCTTATTTCATCAATACTCTTATTAACAA-------GTGAGTACATTGAATAATCTCTGATTTTTAAATGCAAAAAA-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2421306 113 +   3081153 GTCTCCTGTGAAAGTTAATGCAACCATTACCATTATAATAGCTTATTCCATCAATACTC--AATACTAA---AATGATAAGTGAATTGATTATTCTCTGATTTTTAAAATCCAAAGAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23726602 155 +  47401472 I
e aotNan1.NW_018487195v1      9173110 255 -   9889416 I

a score=1321610.000000
s hg38.chr21_GL383579v2_alt    129519 120 +    201197 TAGTTAAATTATTTAGTGGTTATTTAT---ATTTAAAAGTGACTTAGAGAAAAAACAATTATGTCAAGTCCTCACAGGGCAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
s panTro5.chr21               8748348 120 +  33445071 TAGTTAAATTATTTAGTGGTTATTTAT---ATTTAAAAGTGACTTAGAGAAAAAACAATTATGTCAAGTCCTCACAGGGCAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287462 120 +  46275980 TAGTTAAATTATTTAGTGGTTATTTAT---ATTTAAAAGTGACTTAGAGAAAAAACAATTATGTCAAGTCCTCACAGGGCAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270014 120 -  13858734 TAGTTAAATTATTTAGTGGTTATTTAT---ATTTAAAAGTGACTTAGAGAAAAAACAATTACGTCAAGTCCTCACAGGGCAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294396 120 +  32716333 TAGTTAAGTTATTTAGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAGAAACAATTTTGTCAAGTCCTCACAGGGAAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160707864 120 - 185818997 TACTTAAATTATTTAGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAAAAACGATTATGTAAATTCCTCACAGGGAAATGTGTAATAGTAGAAATGTGTTTCAATTTATGAAACAGTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342543 120 - 192294377 TACTTAAATTATTTAGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAAAAACGATTATGTAAATTCCTCACAGGGAAATGTGTAATAGTAGAAATGTGTTTCAATTTATGAAACAGTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978613 120 -  30496662 TAGTTAAATTATTTAGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAAAAACGATTATGTAAATTCCTCACAGGGAAATGTGTAATAGTAGAAGTGTGTTTCAATTTATGAAACAGTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13490973 119 +  21915920 TAGTTAAATTATTTAGTGGTT-TTTTC---CTTTAAAAGTTGCTTTGGGGAAAAACGATTATGTAAATTCCTCACAGGGAAATGTGTAATAGTAGAAATGTGTTTCAATTTATGAAACAGTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992005 120 -  90373283 TAGTTAAATTATTTAGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAAAAACGATTATGTAAATTCCTCACCGGGAAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499456 120 +   7543664 TAGTTAAATTATTTAGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAAAAACAATTATGTAAATTCCTCACAGGGAAATGTGTAATAGTAGAAATGTGTTTCAATTTATGAAACAGTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267509 116 -  13750039 ----TAAATTATTTGGTGGTTATTTAC---ATTAAAAAGTGACTTAGAGAAAAAACAATTATGTAAATTCCTCACAGGGAAATGTGTAATAGTAGAAATGTGTTTCACTTTATGAAACAGTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26526715 119 +  50472720 CATTTAAATTATTTAGTAGTTACTTAC---ATTAAAAAGTGACTTAGAG-AAAAAAAATTATTTCAAGTCCTCAAAGGGAAATGTGTAATAGTAGAAATGTGTTTCATTTTATGAAACACTCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707232 120 +  13128814 CAGTTAAATTATTTAGTGGTTACCTAC---ATTAAAAAGTGCCTTAGAGAAAAAAAAAATATTTCAAGTCCTCGAAGGGAAATGTGTAATAGTAGAAATGTGTTTCATTTTATGAAACACTCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13950735  99 -  14377064 --------------------TACTTAT---ATTAAAAAGTGACTTAGAG-AAAAAATAATATTTCAAGTGCTCAAAGGGAAATGTGTAATAGTAGAAATGTGTTTCATTTTATGAAACACTCA
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23726757 119 +  47401472 TAGTAAAATTATTTAGTGATTATTTAC---ATTAAAAAGTGATTTACAACAAAAAT-ATTATGACAAGCCCTCACAGGGAAATGTGTAATAATAGAAATGTATTTTATTTTATGAAACAGACA
i micMur3.chr31             I 155 C 0
s otoGar3.GL873528           24895395 117 -  38779656 tagttaaattatttaGTGGTTATTTACATTATTAAAAAGTGATTTACAACAAAAAT-ATCACAAGAAACACTTGCAGGGAAATGTGTACGAGTAGAAATG--TTTCATTTTAGGAAATAA---
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18068742 110 +  39895921 -TATTTAATTA-CTGGTGATTACTTAC---ATTAAAAAGTGACTTACAGCAAAAC--AGTATGTCAAG-CCTCACAGGGAAATTTGTAACAGGAGAAATGTGTTTCAC-TTATCAGACA----
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2421419 120 +   3081153 TATTTAAATTATTTAGTGGTTAGTTAC---ATTAAAAAGTGGTTTGCAGAAAAAAATACCATGTCAAATCCCCACAGAGAAATTTGTAGTAGTAGAAATTTGTTTCACTTTACTTAAGAGACA
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9173110 255 -   9889416 I

a score=1694785.000000
s hg38.chr21_GL383579v2_alt    129639 131 +    201197 TGTTCATAATAGACTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGGGAATTTACACTATAAATGAGTCTGAATTATTTTCCAAAGTGAAGAATTATTTCAT----TATGAATATCAAAATATGCA
s panTro5.chr21               8748468 131 +  33445071 TGTTCATAATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGGGAATTTACACTATAAATGAGTCTGAATTATTTTCCAAAGTGAAGAATTATTTCAT----TATGAATATCAAAATATGCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287582 131 +  46275980 TGTTCATAATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGGGAATTTACACTATAAATGAGTCTGAATTATTTTCCAAAGTGAAGAATTATTTCAT----TATGAATATCAAAATATGCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270134 131 -  13858734 TGTTCATAATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGGGAATTTACACTATAAATGAGTCTGAATTATTTTCCAAAGTGAAGAATTACTTCAT----TATGAATATCAAAATATGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294516 131 +  32716333 TGTTCATAATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TCCATCACATTAGGGAATTTACACTATAAATGAGTCTGAATTATTTTCCAAAGTGAAGAATTATTTCAT----CATGAATATCAAAATATGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160707984 131 - 185818997 TGTTCATGATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGAGAATTTACACTATAAAAGAGTCTGAATTATTTTCCAAAGTGAATAATTATTTCAT----CATGAATATCAAAATATGCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342663 131 - 192294377 TGTTCATGATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGAGAATTTACACTATAAAAGAGTCTGAATTATTTTCCAAAGTGAATAATTATTTCAT----CATGAATATCAAAATATGCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978733 131 -  30496662 TGTTCATGATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGAGAATTTACACTATAAAAGAGTCTGAATTATTTTCCAAAGTGAATAATTATTTCAT----CATGAATATCAAAATATGCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491092 131 +  21915920 TGTTCATGATAGATTATGTGGATATAAACCTCCTA-AAAACA---T-TACATCACATTAGAGAATTTACACTATAAAAGAGTCTGAATTATTTTCCAAAGTGAATAATTATTTCAT----CATGAATATCAAAATATGCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992125 131 -  90373283 TGTTCATGATCGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGAGAATTTACACTATAAAAGAGTCTGAATTACTTTCCAAAGTGAAGAATTATTTCAT----CATGAATATCAAAATATGCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499576 131 +   7543664 TGTTCATGATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCACATTAGAGAATTTACACTATAAAAGAGTCTGAATTATTTTCCAAAGTGAATAATTATTTCAT----CATGAATATCAAAATATGCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267625 131 -  13750039 TGTTCATAATAGATTATGTGGATATAAACCTCCTG-AAAACA---T-TACATCATATTAGGGAATTTACACTATAAATGAGTCTGAATTATTTTCCAAAGTGAAGAATTATTTCAT----CATGAGTATCAAAATATGCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26526834 131 +  50472720 TGTTCATAATAAATTATGTGTATTTAAACCTCCTG-AAAACA---T-TACATCACATTATGGAATTTATACTATAAATGAATCGGAATTATTTTCCAAGGTGAAGAATTATTTCAT----CATGAATATCAAAATATGTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707352 131 +  13128814 TGTTCATAATAAATTATGTGTATTTAAACCTCCTG-AAAACA---T-TACGTCACGTTATGGAATTTATACTATAAATGAGTCGGAATTATGTTCCAAAGTGAAGAATTATTTCAT----CATGAATATCAAAATATGTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13950834 131 -  14377064 TGTTCATAATAAAATATGTGTATTTAAACCTCCGG-AAAACA---T-TACATCACATTATGGAATTTATACCATATATGAGTCGGAATTATTTTCCAAAGTGAAGAATTATTTCAT----CATGAATATCAAAATATGTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173365 131 -   9889416 TGTTCATAATAAATTCTGTGTATTTAAACCTCCTG-AAAACA---T-TACATCACATTATGGAATTTATACTATAAATGAGTCGGAATTATTTTCCAAAGTGAAGAATTATTTCAT----CATGAATATCAAAATATGTA
i aotNan1.NW_018487195v1    I 255 C 0
s micMur3.chr31              23726876 131 +  47401472 TGTTCATAATCAATTATGTATATATCACACTCCTGAAAAACA---T-TGCATCGCATTAAGGAATGTAGACTAGAAAC-ATTCTGAATTATTTTCCAAAGTGAAAAGTTATTTTAT----CATAAACATCAAGATGTATA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24895512  97 -  38779656 ----------------------------ATTCCTGAAAAACG---T-TACATCATAATGAGGC------ACTAAAAAT-AATCTAGATTATATTTTAGAATGAAAAATTATTTTAT----CATAAACACCAACATATGTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18068852 136 +  39895921 AGTTCATGATAAATTATGTGTATGTTAAATTCCTA-AAAAAA---TGCATATGCCATGAGGGAATATACACTATGAACGAGTCTGAATTATTTTCCAAAGTAAAAGATTATTTCATCAAACATTAACATCATAATATGCA
i canFam3.chr31             C 0 I 156
s dasNov3.JH578070            2421539 136 +   3081153 -GTTCATGATAACTTAAGTGTATATTAAATTCTTG-GAAAAAAATT-TACATGGTATTAGGGAATGTACATTGTAAATGAGTCTGAATTATTCTCCAATGTG-GGAGTTATTTCATCATACATGAACTTTGCAAGGTACG
i dasNov3.JH578070          C 0 C 0

a score=630373.000000
s hg38.chr21_GL383579v2_alt    129770 49 +    201197 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
s panTro5.chr21               8748599 45 +  33445071 CCTCATT----------------------------AATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287713 45 +  46275980 CCTCATT----------------------------AATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270265 49 -  13858734 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294647 49 +  32716333 CCTCACTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTTCTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708115 49 - 185818997 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342794 49 - 192294377 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978864 49 -  30496662 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491223 49 +  21915920 CCTCACTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992256 49 -  90373283 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499707 49 +   7543664 CCTCATTG------------------------ATTAATTCATATTTTATTATTTCAGATTTCTCAATGTCCTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267756 49 -  13750039 CCTCATTG------------------------ATTAATTCATATTTTTTTATTTCAGATTTCTCAATGTTCTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26526965 49 +  50472720 CCTCATTT------------------------GTTAATTTGTATTTTATTATTTCAGATTTCTCAATATCCTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707483 49 +  13128814 CCTCATTT------------------------ATTAATTTGTATTTTATTATTTCAGATTTCTCAATATCCTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13950965 49 -  14377064 CCTCATTT------------------------ATTAATTTGTCTTTTATTATTTCAGATTTCTCAATATCCTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173496 49 -   9889416 CCTCATTT------------------------ATTAATTTGTATTTTATTATTTCAGATTTCTCAATATCCTG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23727007 49 +  47401472 TCGCTTTA------------------------ATTAATTGATATTTACTTATTTCAGATTTATCAATGTTCTG
i micMur3.chr31             C 0 I 344
s otoGar3.GL873528           24895609 49 -  38779656 TCTCTTTG------------------------ATTATTTAATATTTAATTAACTCAGATTTCTCAATGTTCTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18069144 73 +  39895921 tctcactgtgtgcctatcataaataaaataaaattaaTACATATTTTATTATTTCAAATTTCGTTAATTCCTA
i canFam3.chr31             I 156 I 8
s dasNov3.JH578070            2421675 49 +   3081153 TTTCTTTG------------------------ATTAATTCATACTTAATCATTTGATATTTCTCATTATCCTG
i dasNov3.JH578070          C 0 C 0

a score=344989.000000
s hg38.chr21_GL383579v2_alt    129819 32 +    201197 -------AGACTA-----TTTCTTTGAATGATTGTTGCCTTATT
s panTro5.chr21               8748644 32 +  33445071 -------AGACTA-----TTTCTTTGAATGATTGTTGCCTTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287758 32 +  46275980 -------AGACTA-----TTTCTTTGAATGATTGTTGCCTTATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270314 32 -  13858734 -------AGACTA-----TTTCTTTGAATGATTGTTGTCTTATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294696 32 +  32716333 -------GGCCTA-----TTTCTTTGAATGATTGTTGCTTTATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708164 32 - 185818997 -------GGCCTA-----CTTCTTTAAATGATTGTTGCTTTGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342843 32 - 192294377 -------GGCCTA-----CTTCTTTAAATGATTGTTGCTTTGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978913 32 -  30496662 -------GGCCTA-----CTTCTTTAAATGATTGTTGCTTTGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491272 32 +  21915920 -------GGCCTG-----CTTCTTTAAATGATTGTTGCTTTGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992305 32 -  90373283 -------GGCCTA-----CTTCTTTAAATGATTGTTGCTTTGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499756 32 +   7543664 -------GGCCTA-----CTTCTTTAAATGATTGTTGCTTTGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267805 32 -  13750039 -------GGCCTA-----CTTCTTTAAATGATTGTTGCTTTATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527014 32 +  50472720 -------GGCATA-----CTTCTTTGAAAGATTATTGCCTTATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707532 32 +  13128814 -------GGCATA-----GTTCTTTGAAAGATTATTGCCTTATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951014 32 -  14377064 -------GGCATA-----CTTCTTTGAAAGATTATTGCCTTACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173545 32 -   9889416 -------GGCATA-----CTTCTTTGAAAGATTATTGCCTTATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24895658 37 -  38779656 -------GGCATAAGGACATACTTTGAATGACTATTGCCTTATT
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18069225 32 +  39895921 -------AACATT-----CTTCTTTGAATAATTGTTGTCTTATC
i canFam3.chr31             I 8 C 0
s dasNov3.JH578070            2421724 40 +   3081153 CAAATAGGAACTA----TTTTCTTTGAATAGTTATTGTCTTATG
i dasNov3.JH578070          C 0 I 1
e micMur3.chr31              23727056 344 +  47401472 I

a score=1720101.000000
s hg38.chr21_GL383579v2_alt    129851 141 +    201197 AACATAATTCCCTGATCTTAAACACATAACAT----AACTTTGTGTGTATTGCCAATTGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCGTGAAATCTAAAAT-T-TTTTGTGGAATTTTTAAACAATGACAA
s panTro5.chr21               8748676 141 +  33445071 AACATAATTCCCTGATCTTAAACACATAACAT----AACTTTGTGTGTATTGCCAATTGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGAAATCTAAAAT-T-TTTTGTGGAATTTTTAAACAATGACAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287790 141 +  46275980 AACATAATTCCCTGATCTTAAACACATAACAT----AACTTTGTGTGTATTGCCAATTGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGAAATCTAAAAT-T-TTTTGTGGAATTTTTAAACAATGACAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270346 141 -  13858734 AACATAATTCCCTGATCTTAAACACATAACAT----AACTTTGTGTGTATTGCCAATTGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGAAATCTAAAAT-T-TTTTCTGGGATTTTTAAACAATGACAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294728 141 +  32716333 AAGATAATTCCCTGATCTTAAACACATAACAT----AACTTTGTGTGTATTGCCAATTGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTTAAATCTAAAAT-T-TTTTGTGGGATTTTTAAACAATGACAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708196 139 - 185818997 AACATAATTCCCTGATCTTAAACACATAACAT----AAC--TGTGCGTATTGCCAACCGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGGAATCTAAAAT-T-TTTTGTGGGATTTTTAAACAATGACAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167342875 139 - 192294377 AACATAATTCCCTGATCTTAAACACATAACAT----AAC--TGTGCGTATTGCCAACCGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGGAATCTAAAAT-T-TTTTGTGGGATTTTTAAACAATGACAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4978945 139 -  30496662 AACATAATTCCCTGATCTTAAACACATAACAT----AAC--TGTGCGTATTGCCAACCGCACAAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGGAATCTAAAAT-T-TTTTGTGGGATTTTTAAACAATGACAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491304 139 +  21915920 AACATAATTCCCTGATCTTAAACACATAACAT----AAC--TGTGTGTATTGCCAACCGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGGAATCTAAAAT-T-TTTTGTGGAATTTTTAAACAATGACAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992337 139 -  90373283 AACATAATTCCCTGATCTTAAACACGTAACAT----AAC--TGTGCGTATTGCCAATCGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAGTGCTATCTTGGAATCTAAAAT-T-TTTTGTGGGATTTTTAAACAATGACAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499788 139 +   7543664 AACATAATTCCCTGATCTTAAACACATAACAT----AAC--TGTGCGTATTGCCAACCGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGGAATCTAAAAT-T-TTTTGTGGGATTTTTAAACAATGACAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267837 140 -  13750039 AACATAATTCCCTGATCTTAAACACATAACAT----AAC--TGTGTGTATTGCCAATTGCACCAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTATCTTGAAATCTAAAATAT-TTTTGTGGGATTTTTAAACAATGACAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527046 132 +  50472720 AACATTATTCC-----CTGAAACACATAAATT---------TGTGTGTATTGCCAATTGCACTAGCAGATGTTTATGTTCTAACAATTTATTGTAATGATGTCTTGAAATCTAAAAT-TCTTTTCTGGGATTTTTAAACAACGACAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707564 137 +  13128814 AACATGATTCCCTGATCTGAAACACATAAATT---------TGTTTGTATTGCCAATTGCACTAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTGCCTTGAAATCTAAAAT-TCTTTTCTGGGACTTTTAAACAATAACAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951046 137 -  14377064 AACATGATTCCCTGATCTGCAACACATAAATT---------TGTGTGTATTGCAAATTGCACTAGCAGATGTTTATGTTGTAACAATTTATTGTAATGCTGTCTTGAAATCGAAAAT-TATTTTCTGGGATTTTTAAACAATGACAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173577 135 -   9889416 AACATGATTCCCTGATCTGAAACAC--AGATT---------TGTGTGTATTGCCAGTTGCACTAGCAGATGTTTATGTTCTAACAATTTATTGTAATGCTGTCTTGAAATCCGAAAT-TCTTTTCTGGGATTTTTAAACAATGACAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23727400 140 +  47401472 AACACAATTCCCTTGTCTTAAACACATAACATAAATAAC----TGTGTATTTGCCAATGCACCAGCAGATGTTTATGTTGTAACAATTTACTGTAATGCTTCCTTGAAATCTAAGAT---CTTTCTGGGATATTTAAACAATGACAA
i micMur3.chr31             I 344 I 615
s otoGar3.GL873528           24895696 144 -  38779656 AACACAATTCTTTCCTCTTAAACACATAACATAAATAACTCTGTGTGTATTTGCCAATGTACCAGCAGATGTTTATGTGGTAACAATTCATTGTAATGCTTTCTTGAAATCTAAGAT---TGTTCTGGGATATTTAAACAATGACAA
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18069257 135 +  39895921 -AAACAATTTCTCAGTCTTAAACATATAACACACATAAG--TGTGGATACATGCTGATGTGCCAGCAGATGTTTA-----TAAAGTTTTATT-TAATGCTTTCTTGAAATCTAAGAT---TTTCTTGGGACATTTATACAATGACAC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2421765 138 +   3081153 AACACAATCTTCTGGTCTTAACATTAAAAAGT----ACCC-TGTGAGTATATGCTAATGCATCAGAAGATATTTATGTTTTAATATATTATTGTAACATCTCATTAAAATT--AGAT-T-TTTTTGGATTATTTTAAAAAATGACAC
i dasNov3.JH578070          I 1 C 0

a score=1992236.000000
s hg38.chr21_GL383579v2_alt    129992 177 +    201197 AATATCATGACCAACTAATTTAAATGGTGATGC-------------TTACTACATAGTTATTATGTCAACACGAACCTGCT-GGCATTAG----------ATACTCACTCTCTCCATTGAGGTAAAAATCTCAATAATAGTCCATAATTAAAGAAAAATGTTATTAGTCCTATACAAGTTTGAGCATTTACCATAGGGAGA
s panTro5.chr21               8748817 177 +  33445071 AATATCATGACCAACTAATTTAAATGGTGATGC-------------TTACTACATAGTTATTATGTCAACACGAACCTGCT-GGCATTAG----------ATACTCACTCTCTCCATTGAGGTAAAAATCTCAATAATAGTCCATAATTAAAGAAAAATGTTATTAGTCCTGTACAAGTTTGAGCATTTACCATAGGGAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22287931 177 +  46275980 AATATCATGACCAACTAATTTAAATGGTGATGC-------------TTACTACATAGTTATTATGTCAACACGAACCTGCT-GGCATTAG----------ATACTCACTCTCTCCATTGAGGTAAAAATCTCAATAATAGTCCATAATTAAAGAAAAATGTTATTAGTCCTATACAAGTTTGAGCATTTACCATAGGGAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270487 177 -  13858734 AATATCATGACCAACTAATTTAAATGGTGATGC-------------TTACTACATAGTTATTATGTCAACACGAACCTGCT-GGCATTAG----------ATGCTCACTCTCTCCATTGAGGTAAAAATCTCAATAATAGTCCATAATTAAAGAAAAATGTTATTAGTCCTATACAAGTTTGAGCATTTACCGTAGGGAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9294869 181 +  32716333 AATATCATGACCAACTAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTTACTCTCTCCATTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAAAAATGTTATTAGTCCTGTAAAGGTTTGAGCATTTACCACAGAGAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708335 181 - 185818997 AATATCATGACCAACGAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTCACTCTCTCCGTTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAAAAATCTTATTAATCCTGTAAAAGCTTGAGAATTTACCACAGAGAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343014 181 - 192294377 AATATCATGACCAACGAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTCACTCTCTCCGTTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAAAAATCTTATTAATCCTGTAAAAGCTTGAGAATTTACCACAGAGAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979084 181 -  30496662 AATATCATGACCAACGAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTCACTCTCTCCGTTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAAAAATCTTATTAATCCTGTAAAAGCTTGAGAATTTACCACAGAGAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491443 181 +  21915920 AATATCATGACCAACGAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTCACTCTCTCCGTTGAGGTAGAAATCTCAATAATAGTCCATAATTAAGGAAAAATCTTATTAATCCTGTAAAAGCTTGAGCATTTACCACAGAGAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992476 181 -  90373283 AGTATCATGACCAACAAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTCACTCTCTCCGTTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAAAACTGTTATTAATCCTGTAAAAGCTTGAGCATTTACCACAGAGAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3499927 181 +   7543664 AATATCATGACCAACGAATTTAAATGGTGATGC-------------TTACTACATAGTTACTATGTCAACATGAGCCTGCT-GGCATTAGATC------TATGCTCACTCTCTCCGTTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAAAAATCTTATTAATCCTGTAAAAGCTTGAGCATTTACCACAGAGAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5267977 181 -  13750039 AATATCATGACCAACGAATTTAAATGGTGATGC-------------TTACTACATAGTTACTACGTCAACATGAGCCTGCT-GGCATTAGGTC------TATGCTCACTCTCTCTGTTGAGGTAGAAATCTCAATAGTAGTCCATAATTAAAGAAAAATGTTATTAATCCTGCAAAAGTTTGAGCATTTACCACAGAGAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527178 194 +  50472720 AATATCATGACCAGCTAATTTAAATGGTGATGCACACTACATAATTTTACTACATAGTTACTATGTCAACATGAGCCTACT-GGCATTAGATT------CATGCTGACTGTCTCCATTGAGGTATAAATCTCAATAATAGTCCATAATTAAAGAGAAATGTTATTGGTCTTGTAAAAGTTTAAGTATTTACCACAGAGAAa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707701 194 +  13128814 AATATCATGACCACCTAATTTAAATGGTGATGCTTACTACATAGCTTTACTACATAGTTACTATGTCAACATGAGCCCATT-GGCATTAGATC------CATGCTGACTCTCTCCATTGAGGTAGAAATCTCAGTAATAGTCCATCATTAAAGAGTATTGTTATTGGTCTTGTAAAAGTTTGAGTATTTACCACAGAGAAa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951183 179 -  14377064 AATA---------------TTAAATGGTGATGCTTACTACATAGTTTTACTACATAGTTACTATGTCAACATGAGCCCATT-GGTATTAGATC------CGTGCTGACTCTCTCCATTGAGGTAGAAATCTCAATCATAGTCTATAATTAAAGAGTAATATTATTGGTCTTGTAAAAGTTTGAATATTTACCACAGAGAAa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173712 194 -   9889416 AATGTCATGACCAGCTAATTTAAATGGTGATGCTTACTACATAGTTTTACTACGTAGTTACTATGTCAACATGAGCCCATT-GGCATTAGATC------CATGCTGACTCTCTCCATTGAGGTAGAAATCTCAATAATAGTCCATAATTAAAGAGAAATGTTATTGGTCTTGTGAAAGTTTGAGTATTTACCACAGAGAAa
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24895840 184 -  38779656 AATAGCATGACGATCTAATT---ATGGTAACAC-------------TTATTACATAGTCACTGTATTTACATGGGTTTGCT-GGCATTAGATCATTAGATATGCCCACTCTGTTCTTTGAGATGGTTATCTCAGTAATATTCCATAATTAAAGGGAAATGCTCCTGGACCTGTAGAAACTTAAGCATTTACCACAAAGGGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18069392 164 +  39895921 AGTATTATGATCAACAGATTTAAATGATAATGT-------------TTACTACTTAGTCACTCCATCAACATACGC-----------------------TGTGCCAACTCTGTCCATTGAGGCAGGTGTCTCAATAATAGTTCATCATTAAGGAGAGATGCGAGTAGTCCTATAGAAGCTTAAGCATTTA-CACAGAGAAA
i canFam3.chr31             C 0 I 65
s dasNov3.JH578070            2421903 157 +   3081153 AATGTCATGAC------------------ATAC-------------TGATT---TAGTCAGTAAACCAACAATGGCTTGTTCGATGTTAGAAC------TTTGACAACTCTGCCCATTGAAACAGATATCCCAACAATGTTAC----TTAAACAGAGACACTGCTAGTACTATGAAAGCTTAGGCATTCATTAAAGAGAGA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I

a score=11849.000000
s hg38.chr21_GL383579v2_alt    130169 1 +    201197 A
s panTro5.chr21               8748994 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288108 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270664 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295050 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708516 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343195 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979265 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491624 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992657 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500108 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268158 1 -  13750039 G
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527372 1 +  50472720 a
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707895 1 +  13128814 a
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951362 1 -  14377064 a
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173906 1 -   9889416 a
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24896024 1 -  38779656 A
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2422060 1 +   3081153 A
i dasNov3.JH578070          C 0 I 296
e micMur3.chr31              23727540 615 +  47401472 I
e canFam3.chr31              18069556 65 +  39895921 I

a score=223154.000000
s hg38.chr21_GL383579v2_alt    130170 34 +    201197 C-------------------------TGCagcaaagagggaaggaagggaggaaggaag
s panTro5.chr21               8748995 34 +  33445071 C-------------------------TGCagcaaagagggaaggaagggaggaagggag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288109 34 +  46275980 C-------------------------TGCagcaaagagggaaggaagggaggaagggag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270665 34 -  13858734 C-------------------------TGCagcaaagagggaaggaaggggggaagggag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295051 34 +  32716333 C-------------------------Tggaagaaggagagaaggaagggaggaagggag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708517 34 - 185818997 C-------------------------TGCaggaaggagggaaagaagggaggaaggaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343196 34 - 192294377 C-------------------------TGCaggaaggagggaaagaagggaggaaggaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979266 34 -  30496662 C-------------------------TGCaggaaggagggaaagaagggaggaaggaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491625 34 +  21915920 C-------------------------TGCaggaaggagggaaagaagggaggaaggaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992658 34 -  90373283 C-------------------------TGCaggaaggagggaaagaagggaggaaggaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500109 34 +   7543664 C-------------------------TGCaggaaggagggaaagaagggaggaaggaag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268159 34 -  13750039 C-------------------------TGCAGGAAGAAGggaaagaagggaggaaggaag
i colAng1.NW_012120598v1    C 0 I 429
s calJac3.chr21              26527373 21 +  50472720 --------------------------------------ggaaggaagaagggaagggag
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707896 21 +  13128814 --------------------------------------gaaaggaagaagggaaagaag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951363 21 -  14377064 --------------------------------------ggaaggaagaagggaaggaag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173907 21 -   9889416 --------------------------------------ggaaggaagaagggaaggaag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24896025 54 -  38779656 CATGATGCTGGCCTTAGATTGCTAATTCCAGAAAGT--ggaaggaaggaagaaaag---
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069556 65 +  39895921 I

a score=79046.000000
s hg38.chr21_GL383579v2_alt    130204 8 +    201197 gaaggaag
s panTro5.chr21               8749029 8 +  33445071 gaaagaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288143 8 +  46275980 gaaagaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270699 8 -  13858734 gaaagaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295085 8 +  32716333 gaaaggag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708551 8 - 185818997 gaagggag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343230 8 - 192294377 gaagggag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979300 8 -  30496662 gaagggag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491659 8 +  21915920 gaagggag
i cerAty1.NW_012002954v1    C 0 I 144
s chlSab2.chr2               19992692 8 -  90373283 gaagggag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500143 8 +   7543664 gaagggag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268622 8 -  13750039 gaaggaag
i colAng1.NW_012120598v1    I 429 C 0
s calJac3.chr21              26527394 8 +  50472720 ggagggag
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8707917 8 +  13128814 gaaggaag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951384 8 -  14377064 gaaggtaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173928 8 -   9889416 gaaggaag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24896079 8 -  38779656 gagagaag
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069556 65 +  39895921 I

a score=45952.000000
s hg38.chr21_GL383579v2_alt    130212 4 +    201197 gaag
s panTro5.chr21               8749037 4 +  33445071 gaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288151 4 +  46275980 gaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270707 4 -  13858734 gaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295093 4 +  32716333 gaaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708559 4 - 185818997 gaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343238 4 - 192294377 gaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979308 4 -  30496662 gaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491811 4 +  21915920 gaag
i cerAty1.NW_012002954v1    I 144 C 0
s chlSab2.chr2               19992700 4 -  90373283 gaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500151 4 +   7543664 gaag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268630 4 -  13750039 gaag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527402 4 +  50472720 ggag
i calJac3.chr21             C 0 I 377
s saiBol1.JH378168            8707925 4 +  13128814 gaag
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951392 4 -  14377064 gaag
i cebCap1.NW_016107322v1    C 0 I 4
s aotNan1.NW_018487195v1      9173936 4 -   9889416 gaag
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24896087 4 -  38779656 gagg
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069556 65 +  39895921 I

a score=201986.000000
s hg38.chr21_GL383579v2_alt    130216 31 +    201197 gaaggaaggaaggaaggaaggaaggaaggaa-
s panTro5.chr21               8749041 27 +  33445071 gaaggaaggaaggaaggaaggaaggaa-----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288155 19 +  46275980 gaaggaaggaaggaaggaa-------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270711 31 -  13858734 gaaggaaggaaagaaggaaggaaggaagcaa-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295097 31 +  32716333 ggaggaaggaaggaaggaagggaggaaggaa-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708563 31 - 185818997 agaggaaagaaggaaggaagggagggaggga-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343242 31 - 192294377 ggaggaaagaaggaaggaagggagggaggga-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979312 31 -  30496662 ggaggaaagaaggaaggaagggagggaggga-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491815 31 +  21915920 gaaggaaggaaggaagggagggaggaaggga-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992704 31 -  90373283 ggaggaaagaaggaaggaagggagggaggga-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500155 31 +   7543664 ggaggaaagaaggaaggaagggagggaggaa-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268634 31 -  13750039 gaaggatggaaggaagggaggaaggaaggga-
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8707929 11 +  13128814 --------------------gaaggaaggaa-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951400 31 -  14377064 gaaggaagaaaggaaggaaggaaggaaggaa-
i cebCap1.NW_016107322v1    I 4 C 0
s aotNan1.NW_018487195v1      9173940 31 -   9889416 gaaggaaggaaggaaggcaggcaggcaggca-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24896091 31 -  38779656 -gaggaaaggaagtggggagggaggaaaggaa
i otoGar3.GL873528          C 0 I 1452
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069556 65 +  39895921 I
e calJac3.chr21              26527406 377 +  50472720 I

a score=6228.000000
s hg38.chr21_GL383579v2_alt    130247 1 +    201197 g
s gorGor5.CYUI01015003v1      8270742 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 I 21
s nomLeu3.chr25               9295128 1 +  32716333 g
i nomLeu3.chr25             C 0 I 6
s rheMac8.chr3              160708594 1 - 185818997 g
i rheMac8.chr3              C 0 I 2
s macFas5.chr3              167343273 1 - 192294377 g
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      4979343 1 -  30496662 g
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13491846 1 +  21915920 g
i cerAty1.NW_012002954v1    C 0 I 2
s chlSab2.chr2               19992735 1 -  90373283 g
i chlSab2.chr2              C 0 I 2
s manLeu1.NW_012103476v1      3500186 1 +   7543664 a
i manLeu1.NW_012103476v1    C 0 I 2
s colAng1.NW_012120598v1      5268665 1 -  13750039 g
i colAng1.NW_012120598v1    C 0 I 2
s saiBol1.JH378168            8707940 1 +  13128814 g
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951431 1 -  14377064 g
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9173971 1 -   9889416 g
i aotNan1.NW_018487195v1    C 0 I 38
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069556 65 +  39895921 I
e calJac3.chr21              26527406 377 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e panPan2.chr21              22288174 0 +  46275980 C
e panTro5.chr21               8749068 0 +  33445071 C

a score=228976.000000
s hg38.chr21_GL383579v2_alt    130248 45 +    201197 gaaaagaaggaaggaagaaaggaagg-a-----aggaaggaaaaaaggaag
s panTro5.chr21               8749068 42 +  33445071 ---aagaaggaaggaagaaaggaagg-a-----aggaaggaaaaaaggaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288174 42 +  46275980 ---aagaaggaaggaagaaaggaagg-a-----aggaaggaaaaaaggaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270764 44 -  13858734 gaaaggaacgaaggaagaaaggaagg-a-----aggaagg-aaaaaggaag
i gorGor5.CYUI01015003v1    I 21 C 0
s nomLeu3.chr25               9295135 50 +  32716333 ggaaggaaggaaggaaggaaggaagg-aaaaagaggaaggaaggagggagg
i nomLeu3.chr25             I 6 C 0
s rheMac8.chr3              160708597 42 - 185818997 ---aggaaagaaggaaggaagggagg-g-----agggaggaaagaagggag
i rheMac8.chr3              I 2 C 0
s macFas5.chr3              167343276 42 - 192294377 ---aggaaagaaggaaggaagggagg-g-----agggagggaggaaagaag
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      4979346 42 -  30496662 ---aggaaagaaggaaggaagggagg-a-----aagaaggaaggaagggag
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13491849 42 +  21915920 ---aagaaggaaggaaggaaggaagg-g-----agagagggagtaagggag
i cerAty1.NW_012002954v1    I 2 C 0
s chlSab2.chr2               19992738 42 -  90373283 ---aggaaggaagggaggaaagaagg-g-----aggaagggaggaaagaag
i chlSab2.chr2              I 2 C 0
s manLeu1.NW_012103476v1      3500189 42 +   7543664 ---agggaggaagggagggaggaagg-a-----aggaaggaaggaaggaag
i manLeu1.NW_012103476v1    I 2 C 0
s colAng1.NW_012120598v1      5268668 42 -  13750039 ---aagaagggaggaaggaaggaagg-a-----agagaaggagtgagggag
i colAng1.NW_012120598v1    I 2 C 0
s saiBol1.JH378168            8707941 34 +  13128814 -gaaggaaggaaggaaggcaggCAGACA-----AGGGAGG-----------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951432 44 -  14377064 -gaaggaaggaaggaaggaaggaagg-a-----aggaaggaaagaaggaag
i cebCap1.NW_016107322v1    C 0 I 41
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069556 65 +  39895921 I
e aotNan1.NW_018487195v1      9173972 38 -   9889416 I
e calJac3.chr21              26527406 377 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=8756.000000
s hg38.chr21_GL383579v2_alt    130293 2 +    201197 ga
s panTro5.chr21               8749110 2 +  33445071 ga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288216 2 +  46275980 ga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270808 2 -  13858734 ga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295185 2 +  32716333 ga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708639 2 - 185818997 ga
i rheMac8.chr3              C 0 I 222
s macFas5.chr3              167343318 2 - 192294377 gg
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      4979388 2 -  30496662 gg
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13491891 2 +  21915920 gg
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19992780 2 -  90373283 ga
i chlSab2.chr2              C 0 I 5
s manLeu1.NW_012103476v1      3500231 2 +   7543664 ga
i manLeu1.NW_012103476v1    C 0 I 5
s colAng1.NW_012120598v1      5268710 2 -  13750039 gg
i colAng1.NW_012120598v1    C 0 I 1
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e canFam3.chr31              18069556 65 +  39895921 I
e aotNan1.NW_018487195v1      9173972 38 -   9889416 I
e calJac3.chr21              26527406 377 +  50472720 I
e saiBol1.JH378168            8707975 0 +  13128814 C
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=39558.000000
s hg38.chr21_GL383579v2_alt    130295 14 +    201197 gggagg------------gagggaag
s panTro5.chr21               8749112 14 +  33445071 gggagg------------gagggaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288218 14 +  46275980 gggagg------------gagggaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270810 14 -  13858734 gggagg------------gagggaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295187 14 +  32716333 gggagg------------gagggaag
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167343321 14 - 192294377 ggaagg------------gaggaaag
i macFas5.chr3              I 1 I 3
s macNem1.NW_012015021v1      4979391 14 -  30496662 gggagg------------gaggaaag
i macNem1.NW_012015021v1    I 1 I 168
s cerAty1.NW_012002954v1     13491894 14 +  21915920 gggagg------------gagggagg
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               19992787 25 -  90373283 ggaagggagagagggagtaagggag-
i chlSab2.chr2              I 5 C 0
s manLeu1.NW_012103476v1      3500238 13 +   7543664 ggaagg------------aaggaag-
i manLeu1.NW_012103476v1    I 5 C 0
s colAng1.NW_012120598v1      5268713 22 -  13750039 gggagg----gagagactgagggaga
i colAng1.NW_012120598v1    I 1 I 2
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e rheMac8.chr3              160708641 222 - 185818997 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e canFam3.chr31              18069556 65 +  39895921 I
e aotNan1.NW_018487195v1      9173972 38 -   9889416 I
e calJac3.chr21              26527406 377 +  50472720 I
e saiBol1.JH378168            8707975  0 +  13128814 C
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=4197.000000
s hg38.chr21_GL383579v2_alt    130309 2 +    201197 ga
s panTro5.chr21               8749126 2 +  33445071 ga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288232 2 +  46275980 ga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270824 2 -  13858734 ga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295201 2 +  32716333 ga
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167343338 2 - 192294377 ga
i macFas5.chr3              I 3 I 202
s macNem1.NW_012015021v1      4979573 2 -  30496662 ga
i macNem1.NW_012015021v1    I 168 I 1
s cerAty1.NW_012002954v1     13491908 2 +  21915920 ga
i cerAty1.NW_012002954v1    C 0 I 17
s chlSab2.chr2               19992812 2 -  90373283 gg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500251 2 +   7543664 ga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268737 1 -  13750039 g-
i colAng1.NW_012120598v1    I 2 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e rheMac8.chr3              160708641 222 - 185818997 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e canFam3.chr31              18069556 65 +  39895921 I
e aotNan1.NW_018487195v1      9173972 38 -   9889416 I
e calJac3.chr21              26527406 377 +  50472720 I
e saiBol1.JH378168            8707975 0 +  13128814 C
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=11935.000000
s hg38.chr21_GL383579v2_alt    130311 3 +    201197 aag
s panTro5.chr21               8749128 3 +  33445071 aag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288234 3 +  46275980 aag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270826 3 -  13858734 aag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295203 3 +  32716333 aag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708863 3 - 185818997 aaa
i rheMac8.chr3              I 222 C 0
s macFas5.chr3              167343542 3 - 192294377 aaa
i macFas5.chr3              I 202 C 0
s macNem1.NW_012015021v1      4979576 3 -  30496662 aaa
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13491927 3 +  21915920 aaa
i cerAty1.NW_012002954v1    I 17 C 0
s chlSab2.chr2               19992814 3 -  90373283 agg
i chlSab2.chr2              C 0 I 30
s manLeu1.NW_012103476v1      3500253 3 +   7543664 agg
i manLeu1.NW_012103476v1    C 0 I 201
s colAng1.NW_012120598v1      5268738 3 -  13750039 AAG
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e canFam3.chr31              18069556 65 +  39895921 I
e aotNan1.NW_018487195v1      9173972 38 -   9889416 I
e calJac3.chr21              26527406 377 +  50472720 I
e saiBol1.JH378168            8707975 0 +  13128814 C
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=18018.000000
s hg38.chr21_GL383579v2_alt    130314 3 +    201197 aaa
s panTro5.chr21               8749131 3 +  33445071 aaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288237 3 +  46275980 aaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270829 3 -  13858734 aaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295206 3 +  32716333 aaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708866 3 - 185818997 aaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343545 3 - 192294377 aaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979579 3 -  30496662 aaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491930 3 +  21915920 aaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992847 3 -  90373283 aaa
i chlSab2.chr2              I 30 C 0
s manLeu1.NW_012103476v1      3500457 3 +   7543664 AAA
i manLeu1.NW_012103476v1    I 201 C 0
s colAng1.NW_012120598v1      5268741 3 -  13750039 AAA
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e canFam3.chr31              18069556 65 +  39895921 I
e aotNan1.NW_018487195v1      9173972 38 -   9889416 I
e calJac3.chr21              26527406 377 +  50472720 I
e saiBol1.JH378168            8707975 0 +  13128814 C
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=106407.000000
s hg38.chr21_GL383579v2_alt    130317 14 +    201197 gaaAAGCTTAAACT
s panTro5.chr21               8749134 14 +  33445071 gaaAAGCTTAAACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288240 14 +  46275980 gaaAAGCTTAAACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270832 14 -  13858734 gaaAAGCTTAAACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295209 14 +  32716333 gaaAAGCTTGAACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708869 14 - 185818997 gaaaAGCTTAAACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343548 14 - 192294377 gaaaAGCTTAAACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979582 14 -  30496662 gaaaAGCTTAAACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491933 14 +  21915920 gaaaAGCTTAAACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992850 14 -  90373283 gaaaAGCTTAAACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500460 14 +   7543664 GAAAAGCTTAAACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268744 14 -  13750039 GAAAAGCTTAAACT
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8707975 14 +  13128814 GAAAATTTCAAACT
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9174010 14 -   9889416 gaaAATTTCAAACT
i aotNan1.NW_018487195v1    I 38 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e canFam3.chr31              18069556 65 +  39895921 I
e calJac3.chr21              26527406 377 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=10500.000000
s hg38.chr21_GL383579v2_alt    130331 1 +    201197 C
s panTro5.chr21               8749148 1 +  33445071 C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288254 1 +  46275980 C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270846 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295223 1 +  32716333 C
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708883 1 - 185818997 C
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343562 1 - 192294377 C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979596 1 -  30496662 C
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491947 1 +  21915920 C
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992864 1 -  90373283 C
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500474 1 +   7543664 C
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268758 1 -  13750039 C
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8707989 1 +  13128814 C
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9174024 1 -   9889416 C
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18069621 1 +  39895921 C
i canFam3.chr31             I 65 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e cebCap1.NW_016107322v1     13951476 41 -  14377064 I
e calJac3.chr21              26527406 377 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=11867.000000
s hg38.chr21_GL383579v2_alt    130332 5 +    201197 T-AATT---
s panTro5.chr21               8749149 5 +  33445071 T-AATT---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288255 5 +  46275980 T-AATT---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270847 5 -  13858734 T-AATT---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295224 5 +  32716333 T-AATT---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708884 6 - 185818997 TAAATT---
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343563 6 - 192294377 TAAATT---
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979597 6 -  30496662 TAAATT---
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491948 6 +  21915920 TAAATT---
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992865 6 -  90373283 TAAATT---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500475 6 +   7543664 TAAATT---
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268759 6 -  13750039 TAAATT---
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8707990 5 +  13128814 -TAATT---
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951517 5 -  14377064 -TAATT---
i cebCap1.NW_016107322v1    I 41 C 0
s aotNan1.NW_018487195v1      9174025 5 -   9889416 -TAATT---
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18069622 5 +  39895921 ----TTATG
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e calJac3.chr21              26527406 377 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=296080.000000
s hg38.chr21_GL383579v2_alt    130337 27 +    201197 CTTCAACTTATACTGACTTCAATTAAT
s panTro5.chr21               8749154 27 +  33445071 CTTCAACTGACACTGACTTCAATTAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288260 27 +  46275980 CTTCAACTTACACTGACTTCAATTAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270852 27 -  13858734 CTTCAACTTATACTGACTTCAATTAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295229 27 +  32716333 CTTCAACTTACACTGACTTCAGTTAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708890 27 - 185818997 CTTCGACTTATACTGACTTCAATTAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343569 27 - 192294377 CTTCGACTTATACTGACTTCAATTAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979603 27 -  30496662 CTTCGACTTATACTGACTTCAATTAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491954 25 +  21915920 CTT--ACTTATACTGACTTCAATTAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992871 27 -  90373283 CTTCGACTTATACTGACTTCAATTAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500481 27 +   7543664 CTTCGACTTATACTGACTTCAATTAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268765 27 -  13750039 CTTCGACTTATACTGACTTCAATTAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527783 27 +  50472720 CTTCAGCTTATACTGACTTCAATTAAT
i calJac3.chr21             I 377 C 0
s saiBol1.JH378168            8707995 27 +  13128814 CTTCAGCTTATACTGACTTCAATTAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951522 27 -  14377064 CTTCAGCTTATGCTGACTTCAATTAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9174030 27 -   9889416 CTTCAGCTTATACTGACTTCAATTAAT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18069627 27 +  39895921 CTTCAACTAATTCTGATTTCAACTAAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=3826052.000000
s hg38.chr21_GL383579v2_alt    130364 375 +    201197 CCTACtgatatgatctgagtttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgtta----gaggatgggggctaatgggatgaacttaggttatgagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgccttctctctcttttgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatcttgccagcctccagaactgcgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
s panTro5.chr21               8749181 370 +  33445071 CCTACtgatatgatctgagtttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgtta----gaggatgggggctaatgggatgaacttaggttatgagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgccttctctctctttt-----tctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatcttgccagcctccagaactgcgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288287 375 +  46275980 CCTACtgatatgatctgagtttgtccc---cctacatttatgtgttggaaacttaatacccaaaggaacagtgtta----gaggatgggggctaatgggatgaacttaggttatgagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgccttctctctcttttgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatcttgccagcctccagaactgcgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8270879 375 -  13858734 CCTACtgatatgatctgagtttgtccc---cctacatttatttgttggaaacttaatccccaaaggaacagtgttg----gaggatgggggctaatgggatgaacttaggttatgagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgccttctctctcttctgcttttctgtcatgcggggactcagtacttgtcctctattgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatcttgccagcctccagaactgcgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295256 375 +  32716333 CCTAGtgatatgatttgaatttgtccc---catacgtttatgtattggaaacttaatccccaaaggaacagtgtta----gaggatgggggctaatgggatgagcttaggttatgagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgttatgtgcggactcagtagttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggagtcttgatcttgccagcctccagaactgtgagagaataaatcttaataaattacccggtatttaatattctgttatggcagcacaaacagactaagGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160708917 379 - 185818997 CCTACtgatataatctgaatttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgttaaaacgaggatgggggctaatgggatgagcttaggttacaagggttctgacctcctgcgtggattcatgctgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatactgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343596 379 - 192294377 CCTACtgatataatctgaatttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgttaaaacgaggatgggggctaatgggatgagcttaggttacaagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatactgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4979630 379 -  30496662 CCTACtgatataatctgaatttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgttaaaacgaggatgggggctaatgggatgagcttaggttacaagggttctgacctcctgcatggattcatgctgctatggacagggttggtgagagtgcattctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatactgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13491979 379 +  21915920 CCTACtgatataatctgaatttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgttaaaacgaggatgggggctaatgggatgagcttaggttacaagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatactgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19992898 382 -  90373283 CCTACtgatataatctgaatttgtccccttcttacatttatgtgttggaaacttaatccccaaaggaacagtgttaaaacgaggatgggggctaatgggaggagcttaggttacaagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgtcacgtggggactcagtacttgtcctcttttgtccttcgccttctgccacatgaggacacagtaagaaggcccacaacagatgctggtgtcttgatactgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagaAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500508 379 +   7543664 CCTACtgatataatctgaatttgtccc---cctacatttatgtgttggaaacttaatccccaaaggaacagtgttaaaacgaggatgggggctaatgggatgagcttaggttacaagggttctgacctcctgcatggattcatgctgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgtcttgatactgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5268792 379 -  13750039 CCTACtgatataatctgaatttatccc---cctacatttatgtgttggaaacttaatccccaaaggaacggtgttaaaacgaggatgggggctaatgggatgagcttaggttatgagggttctgacctcctgcatggattcatgctgctgtgaacagggttgacgagagtgcattctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggcgtcttgatattgccagcctccagaactgtgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26527810 375 +  50472720 CATACtgatatgatctgaattcatccc---cctaggttcatgtgctggtgacttaatcatcaaaacatcagtgtta----gagaatgggggataatgagatgtgcttaggtgatgagggttctaatcttcagcatggtttcacgctgctatgaacagggttggtgagagtgcatcctctctcttctgcttttctgtcatgtggggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacagagtaagaaggcccacaacagatgctggtgtcttgatcttgccagcctccagaactatgacagaataaatcttaataaattacccagtgtttaatattctgttatggcagcacaaacagactaagGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8708022 373 +  13128814 CATACtgatatgatctgaattcatccc---cctaggttcatgtgctggtaacttaatcatcaaagcatcagtgtga----gaggatgggggataatgagatgtgcttaggttatgagggttctaatcttcagcatggattcatgttgctacgaacagagttgatgagagtgcattctctctcttctgcttttctgtcacgtggggactcagaacttgtcctcttttgtccttcgccttctgccatgtgaggacacagtaag-aggcccaccacagatgctggtgtcttgatcttgccagcctccagaaccatgagagaataaatcttaataaattacccagtatttaatattctg-tatggcagcacaaacagactaagGAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951549 373 -  14377064 CATACtgatatgatctgaattcatccc---cctaggttcatgtgctggttactt-accatcaaagcatcagtgtta----gaggttgggggataatgagatgtgcttaggttatgagggttctaatcttccgcatggattcatgttgctatgaacagggttggtgagagtgcattctctctcttctgcttttctgtcacgtggggactcagtacttgtcctcttttgtctttcgccttctgccacgtgaggacacagtaag-aggctcacaacagatgctggtgtcttggtcttgccagcctccagaactatgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9174057 375 -   9889416 CATACtgatataatctgaattcatccc---cctaggttcatgtgctggtaacttaatcatcaaagcatcagtgtta----gaggatgggggataatgagatgtgcttaggttatgagggttctaatcttcagcatggattcatgttgctatgaacagggttggcgagagtgcattctctctcttctgcttttctgtcatgtagggactcagtacttgtcctcttttgtccttcgccttctgccacgtgaggacacagtaagaaggcccacaacagatgctggtgccttgatcttgccagcctccagaactatgagagaataaatcttaataaattacccagtatttaatattctgttatggcagcacaaacagactaagGAA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e canFam3.chr31              18069654   0 +  39895921 C
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=5297878.000000
s hg38.chr21_GL383579v2_alt    130739 539 +    201197  
s panTro5.chr21               8749551 538 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22288662 538 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8271254 538 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9295631 545 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160709296 548 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167343975 548 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4980009 552 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13492358 551 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19993280 550 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3500887 551 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5269171 544 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26528185 532 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8708395 529 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13951922 532 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9174432 524 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18069654 559 +  39895921  
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422061 296 +   3081153 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=1587803.000000
s hg38.chr21_GL383579v2_alt    131278 148 +    201197 TATTTGCTCTATTTATTGGATGTAAC-TTATTTCT-TGATTTTGTCTATTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTGTCAGGACACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTCGAT-ACTGAATCTATATTC
s panTro5.chr21               8750089 148 +  33445071 TATTTGCTCTATTTACTGGATGTAAC-TTATTTCT-TGATTTTGTCTATTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGACACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTCGAT-ACTGAATCTATATTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22289200 148 +  46275980 TATTTGCTCTATTTACTGGATGTAAC-TTATTTCT-TGATTTTGTCTATTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGACACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTCGAT-ACTGAATCTATATTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8271792 148 -  13858734 TATTTGCTCTATTTACTGGATGTAAC-TTATTTCT-TGATTTTTTCTATTTCATCACTCTGGTATTCATCTGA-ACTGAC-------------------ACCATGCT-TCTATCAGGACACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTCGAT-ACTGAATCTGTACTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9296176 148 +  32716333 TATTTGCTCTATTTACTGGATATAAC-TTATTTCT-TGATTTTGTCTATTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGACACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTCGAT-ACTGAATCTATACTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160709844 147 - 185818997 TATTTGTTCTATTTACTGGATATAAG-TTATTTCT-TGA-TTTGTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGATACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTTGAT-ACTGAATCTATACTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167344523 147 - 192294377 TATTTGTTCTATTTACTGGATATAAG-TTATTTCT-TGA-TTTGTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGATACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTTGAT-ACTGAATCTATACTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4980561 147 -  30496662 TATTTGTTCTATTTACTGGATATAAG-TTATTTCT-TGA-TTTTTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGATACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTTGAT-ACTGAATCTATACTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13492909 147 +  21915920 TATTTGTTCTATTTACTGGATATAAG-TTATTTCT-TGA-TTTGTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGATACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTTGAT-ACTGAATCTATACTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19993830 144 -  90373283 TATTTGTTCTATTTACTGGATATAAC-TTATTTCT-TGA-TTTGTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACGTTGCT-TCTATCAGGATACCATCTTTGTGTAAATTCTGTTTTGTGCCTTTTGA----TGAATCTATACTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3501438 147 +   7543664 TATTTGTTCTATTTACTGGATATAAG-TTATTTCT-TGA-TTTGTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTATCAGGATACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTTGAT-ACTGAATCTATACTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5269715 147 -  13750039 TATTTGTTCTATTTACTGGATATAAC-TTATTTCT-TGA-TTTGTCTATTTCATCACTCTGGTATTCATCTGA-CTTGAC-------------------ACCATGCT-TCTATCAGGACACCATCTTTGTGTAAATTCTGTTCTGTGCCTTTTGAT-ACTGAATCTATACTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26528717 148 +  50472720 TATTTGTT-TATTTACTGGATATGAC-TTATTTTT-TGACTTTGTCTATTTCATCACTCTGGTATTCATCTGA-ACCGAC-------------------ACCATGCT-TCTCTCAGGAAACTATCTTTGTGTAAATTCTGTTCTGTGTCTTTTGATAACTGAATCTGTACTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8708924 147 +  13128814 TACTTGTT-TATTTACTGGATATGAC-TTACTTCT-TGACTTTGTCTATTTCATCGCTCTGGTATTCATCTGA-CCCGAC-------------------ATGATGCT-TCTCTCAGGAAACCATCTTTGTGTAAATTCTATTCTGTGTCTTTTGAT-ACTGCATCTGTACTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13952454 147 -  14377064 GATTTGTT-TATTTACTGGATATGAC-TTATTTCT-TGACTTTGTTTCTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCATGCT-TCTCTCAGGAAACCATCTTCGTGTAAATTCTGTTCTGTGTCTTTTGAT-ACTGAATCTGTACTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9174956 147 -   9889416 TATTTGTT-TATTTACTGGATATGAC-TTATTTCT-TGACTTCGTCTGTTTCATCACTCTGGTATTCATCTGA-CCTGAC-------------------ACCACACT-TCTCTCAGGAAACCATCTTTGTGTAAATTCTGTTCTGTGTCTTTTGAT-ACTGAATCTGTACTC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18070213 169 +  39895921 TATTTGCTACATATCCTGGATATAAC-TTATTTCCATTACTTTGTTTCTTTCTTTAATCAGTTATTGGGATGA-CCTGACCTGCATGGGGTCAGGATctatcaggatacctatcaggatacctTCTTTATTTAAATACTGTTCTGGCTCTTGTGAT-GTTGCATCTGCACTC
i canFam3.chr31             C 0 I 813
s dasNov3.JH578070            2422357 144 +   3081153 TATTTGTTCTATTTCTCAAATATGATAACATTTCT-TGACTTATTTTATTTCTTTATTCTGTTATTGGTCCGATCTTGAC-------------------CCCACACT-TTTATCA-GATTCCTTCTTTGTCTAAATCCT----TCTGTCTTATCAT-ACTGAA-CCACACTC
i dasNov3.JH578070          I 296 I 2
e micMur3.chr31              23727540 615 +  47401472 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=84023.000000
s hg38.chr21_GL383579v2_alt    131426 9 +    201197 TGATGCTTT
s panTro5.chr21               8750237 9 +  33445071 TGATGCTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22289348 9 +  46275980 TGATGCTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8271940 9 -  13858734 TGATGCTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9296324 9 +  32716333 TGATGCTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160709991 9 - 185818997 TGATGCTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167344670 9 - 192294377 TGATGCTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4980708 9 -  30496662 TGATGCTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13493056 9 +  21915920 TGATGCTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19993974 8 -  90373283 -GATGTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3501585 9 +   7543664 TGATGCTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5269862 8 -  13750039 -GATGCTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26528865 9 +  50472720 AGATGATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8709071 9 +  13128814 AGATGATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13952601 9 -  14377064 AGATGATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9175103 9 -   9889416 AGTTGATTT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2422503 9 +   3081153 GGATGCTTT
i dasNov3.JH578070          I 2 I 23
e micMur3.chr31              23727540 615 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=18301772.000000
s hg38.chr21_GL383579v2_alt    131435 1978 +    201197  
s panTro5.chr21               8750246 1979 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22289357 1979 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8271949 1978 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9296333 1977 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160710000 1966 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167344679 1966 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4980717 1967 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13493065 1966 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19993982 1976 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3501594 1947 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5269870 1962 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26528874 1955 +  50472720  
i calJac3.chr21             C 0 I 1005
s saiBol1.JH378168            8709080 1983 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13952610 1967 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9175112 1966 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23727540  615 +  47401472 I
e dasNov3.JH578070            2422512   23 +   3081153 I
e canFam3.chr31              18070382  813 +  39895921 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=4531488.000000
s hg38.chr21_GL383579v2_alt    133413 547 +    201197  
s panTro5.chr21               8752225 547 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22291336 547 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8273927 545 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9298310 537 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160711966 557 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167346645 557 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4982684 547 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13495031 557 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19995958 547 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3503541 557 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5271832 556 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8711063 569 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13954577 558 -  14377064  
i cebCap1.NW_016107322v1    C 0 I 125
s aotNan1.NW_018487195v1      9177078 566 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e calJac3.chr21              26530829 1005 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=1035253.000000
s hg38.chr21_GL383579v2_alt    133960 138 +    201197 cagccaagtaatgaatcatgaccagctgacctgcttcctgaag-aaaaaagggaatacagaaggagtagtagaagaaggtag-ttat-aaataacagctatgacacatgaccagttatagaaaaattgaaattgttatatt
s panTro5.chr21               8752772 138 +  33445071 cagccaggtaatgaatcatgaccagctgacctgcttcctgaag-aaaaaagggagtacagaaggagtagtagaagaaggtag-ttat-aaataacagctatgacacatgaccagttatagaaaaattgaaattgttatatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22291883 138 +  46275980 cagccaggtaatgaatcatgaccagctgacctgcttcctgaag-aaaaaagggagtacagaaggagtagtagaagaaggtag-ttat-aaataacagctatgacacatgaccagttatagaaaaattgaaattgttatatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8274472 138 -  13858734 cagccaggtaatgattcatgaccagctgacctgcttcctgaag-aaaaaagggagtacagaaggagtagtagaagaaggtag-ttat-aaatagcagctatgacacatgaccagttatagaaaaattgaaattgttatatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9298847 138 +  32716333 cagccaggtaatgaatcatgaccagctgacctgcttcctgaag-aaaacagggagtacagaaggagtagtagaagaaggtag-ttat-aaataacagctatgacacatgatcagttatagaaaaattgaaattgttatatt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160712523 139 - 185818997 cagccaggtaatgaatgatgaccagctgacctgcttcctgaagaaaaaaagggagtacagaatgagtagtagaagaaggtag-ttat-aaatagcagctatgacacatgaccagttatagaaaaatcgaaattgttgtatt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167347202 139 - 192294377 cagccaggtaatgaatgatgaccagctgacctgcttcctgaagaaaaaaagggagtacagaatgagtagtagaagaaggtag-ttat-aaatagcagctatgacacatgaccagttatagaaaaatcgaaattgttgtatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4983231 139 -  30496662 cagccaggtaatgaatgatgaccagctgacctgcttcctgaagaaaaaaagggagtacagaatgagtagtagaagaaggtag-ttat-aaatagcagctatgacacatgaccagttatagaaaaatcgaaattgttgtatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13495588 139 +  21915920 cagccaggtaatgaatgatgaccagctgacctgcttcctgaagaaaaaaagggagtacagaatgagtagtagaagaaggtag-ttat-aaataacagctatgacacatgaccagttatagaaaaatcaaaattgttatatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19996505 140 -  90373283 cagcgaggtaatgaatgatgaccagctgacctgcttcctgaagaaaaaaagagagtacagaatgagtagtagaagaaggtagttttt-aaataacaactatgacacatgtccagttatagaaaaatcgaaattgttatatt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3504098 139 +   7543664 cagccaggtaatgaatgatgaccagctgacctgcttcctgaagaaaaaaagggagtacagaatgagtagtagaagaaggtag-ttat-aaataacagctatgacacatgaccagttatagaaaaatcaaaattgttatatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5272388 139 -  13750039 cagccaggtaatgaatgatgaccagctgatctgcttcctgaaggaaaaaggggagtacagaatgagtagtagaagaaggtag-ttat-aagtaacagctatgacacatgaccagttatagaaaaattgaaattgttatagt
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8711632 139 +  13128814 cagccaggtaatgaatcattaccagctgacctgcttaaagaag-aaaaaaggcagtacagaataaatagtgggagaaggtag-ttataaaataacagctatgacacatgatcagttatagaaaaactgaaattgttatATT
i saiBol1.JH378168          C 0 I 18
s aotNan1.NW_018487195v1      9177644 139 -   9889416 cagccagatcatgaatcattgccagctgacctgcttaatgaag-aaaaaagagagtacagaataaatagtggaagaaggtag-ttataaaataacagttatgacacatgaccagttatagaaaaattgaaattgttatATT
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e calJac3.chr21              26530829 1005 +  50472720 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=14898.000000
s hg38.chr21_GL383579v2_alt    134098 2 +    201197 tc
s panTro5.chr21               8752910 2 +  33445071 tc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22292021 2 +  46275980 tc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8274610 2 -  13858734 tc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9298985 2 +  32716333 tc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160712662 2 - 185818997 tc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167347341 2 - 192294377 tc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4983370 2 -  30496662 tc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13495727 2 +  21915920 tc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19996645 2 -  90373283 tc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3504237 2 +   7543664 tc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5272527 2 -  13750039 tc
i colAng1.NW_012120598v1    C 0 C 0
s aotNan1.NW_018487195v1      9177783 2 -   9889416 TC
i aotNan1.NW_018487195v1    C 0 I 812
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=3969795.000000
s hg38.chr21_GL383579v2_alt    134100 807 +    201197  
s panTro5.chr21               8752912 796 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22292023 790 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8274612 811 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9298987 791 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160712664 692 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167347343 690 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4983372 702 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13495729 783 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19996647 789 -  90373283  
i chlSab2.chr2              C 0 I 16
s manLeu1.NW_012103476v1      3504239 794 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5272529 789 -  13750039  
i colAng1.NW_012120598v1    C 0 I 6
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771  18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=19305.000000
s hg38.chr21_GL383579v2_alt    134907 27 +    201197 atacacagtcaacctttctct--------attata
s panTro5.chr21               8753708 31 +  33445071 acacacagtcaacctttctctctc----tattata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22292813 27 +  46275980 atacacagtcaacctttctct--------attata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8275423 31 -  13858734 atacacagtcaacctttctctctc----tATTTta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9299778 27 +  32716333 acacacagtcaatctttctct--------attata
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160713356 18 - 185818997 ------attcaacctatctctctc-----------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167348033 18 - 192294377 ------attcaacctatctctctc-----------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4984074 18 -  30496662 ------attcaacctatctctctc-----------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13496512 14 +  21915920 ------attcaaccta----tctc-----------
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3505033 12 +   7543664 --------tcaacctatctc---------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5273324 20 -  13750039 --------tcaacctatctctctctata-------
i colAng1.NW_012120598v1    I 6 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e chlSab2.chr2               19997436 16 -  90373283 I

a score=4166972.000000
s hg38.chr21_GL383579v2_alt    134934 845 +    201197  
s panTro5.chr21               8753739 809 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22292840 817 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8275454 816 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9299805 813 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160713374 808 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167348051 808 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4984092 802 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13496526 814 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19997452 821 -  90373283  
i chlSab2.chr2              I 16 C 0
s manLeu1.NW_012103476v1      3505045 815 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5273344 792 -  13750039  
i colAng1.NW_012120598v1    C 0 I 15
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771  18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=57279.000000
s hg38.chr21_GL383579v2_alt    135779 15 +    201197 taggctgaggcagtc
s panTro5.chr21               8754548 15 +  33445071 taggctgaggcagtc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22293657 15 +  46275980 taggctgaggcagtc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276270 15 -  13858734 taggctgaggcagtc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9300618 15 +  32716333 taggctgaagtggtc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160714182 14 - 185818997 -aggctgagatggtc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167348859 14 - 192294377 -aggctgagatggtc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4984894 14 -  30496662 -aggctgagatggtc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13497340 14 +  21915920 -aggctgatatggtc
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19998273 14 -  90373283 -aggctgatatggtc
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3505860 14 +   7543664 -aggctgatatggtc
i manLeu1.NW_012103476v1    C 0 I 1
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e colAng1.NW_012120598v1      5274136 15 -  13750039 I

a score=217151.000000
s hg38.chr21_GL383579v2_alt    135794 36 +    201197 tcagatagagatgaggagcttgttgggaactggaat
s panTro5.chr21               8754563 36 +  33445071 tcagatagagatgaggagcttgttgggaactggaat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22293672 36 +  46275980 tcagatagagatgaggagcttgttgggaactggaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276285 36 -  13858734 ttagatagagatgaggagcttgttgggaactggaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9300633 36 +  32716333 tcagatagagatgaggagcttgttgggaactggaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160714196 36 - 185818997 tcagatagagatgaagagcttgttgggaactggaat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167348873 36 - 192294377 tcagatagagatgaagagcttgttgggaactggaat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4984908 36 -  30496662 tcagatagagatgaagagcttgttgggaactggaat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13497355 36 +  21915920 tcagatagagatgaagagcttgttgggaactggaat
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               19998288 36 -  90373283 tcagatagagattaagagcttgttgggaactggaat
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3505875 36 +   7543664 tcagatagagatgaagagcttgttgggaactggaat
i manLeu1.NW_012103476v1    I 1 C 0
s colAng1.NW_012120598v1      5274151 36 -  13750039 tcagatagagatgaagagcttgttgggaactggaat
i colAng1.NW_012120598v1    I 15 I 56
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=629984.000000
s hg38.chr21_GL383579v2_alt    135830 154 +    201197 aaaggtgactcttgctatgatttagca----------------------------aagagactggtggcattttgcccctgccttagagatctgtgaaatgttgaactt----gaggtgatttagggtatctggtggaagaaatttctaagcagcaaagtgttaaagatgtgacttgggtgctgtt
s panTro5.chr21               8754599 154 +  33445071 aaaggtgactcttgctatgatttagca----------------------------aagagactggtggcattttgcccctgccttagagatctgtgaaatgttgaactt----gagatgatttagggtatctggtggaagaaatttctaagcagcaaagtgttaaagatgtgacttgggtgctgtt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22293708 154 +  46275980 aaaggtgactcttgctatgatttagca----------------------------aagagactggtggcattttgcccctgccttagagatctgtgaaatgttgaactt----gagatgatttagggtatctggtggaagaaatttctaagcagcaaagtgttaaagatgtgacttgggtgctgtt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276321 154 -  13858734 aaaggtgactcttgctatgttttagca----------------------------aagagactggtggcgttttgcccctgccttagagatctgtgaaatgttgaactt----gagatgatttagggtatctggtggaagaaatttctaagcagcaaagtgttaaagatgtgacttgggtgctgtt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9300669 153 +  32716333 aaaggtgactcttactatgatttagca----------------------------aagagactggtggcattttgcccctgccttagagatctgtgaaatgttgaactt----gagatgatttagagtatctggtggaagaaatttctaagcagccaagtg-taaagaggtgacttgggtgctgtt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160714232 180 - 185818997 aaaggtgactctttctatggtttagca-----aaaacaaaacaaaacaaaacaaaaaaaaactggcagcattttgcccctgccttagagatatgtggag-atcaaacttgagagagattatttagggtatctggtggaagaaatttctaagcagcaaagcattcaggatgtgaattgggtgctctt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167348909 180 - 192294377 aaaggtgactctttctatggtttagca-----aaaacaaaacaaaacaaaacaaaaaaaaactggcagcattttgcccctgccttagagatatgtggag-atcaaacttgagagagattatttagggtatctggtggaagaaatttctaagcagcaaagcattcaggatgtgaattgggtgctctt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4984944 185 -  30496662 aaaggtgactctttctatggtttagcaaaaacaaaacaaaacaaaacaaaacaaaaaaaaactggcagcattttgcccctgccttagagatatgtggag-atcaaacttgagagagattatttagggtatctggtggaagaaatttctaagcagcaaagcattcaggatgtgaattgggtgctctt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13497391 166 +  21915920 aaatgtgactctttctatggtttagga-----a--------------aaaaaaaaaaaaaactggcagcattttgcccctgccttagagatctgtggag-atcaaacttgagagagattatttagggtatctggtggaagaaatttctaagcagcaaagcattcaggatgtgaattgggtgctctt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19998324 164 -  90373283 aaatgtgactctttctatggtttagga---------------------aaaaaaaaaaaaactggcagcattttgcccctgccttagagatctgtggag-atcaaacttgagagagattatttagggtatctggtggaagaaatttctaagcagcaaagcattcaggatgtgaattgggtgctctt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3505911 162 +   7543664 aaatgtgactctttctatggtttagg-----------------------aaaaaaaaaaaactggcagcattttgcccctgccttagagatctgtggag-atcaaacttgagagagattatttagggtatctggtggaagaaatttctaagcagcaaagcattcaggatgtgaattgggtgctctt
i manLeu1.NW_012103476v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771  18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e colAng1.NW_012120598v1      5274187  56 -  13750039 I

a score=28326.000000
s hg38.chr21_GL383579v2_alt    135984 15 +    201197 aaaagcagtcagttt
s panTro5.chr21               8754753 15 +  33445071 aaaagcagtcagttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22293862 15 +  46275980 aaaagcagtcagttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276475 15 -  13858734 aaaagcagacagttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9300822 15 +  32716333 aaaagcagtcagttt
i nomLeu3.chr25             C 0 C 0
s cerAty1.NW_012002954v1     13497557 15 +  21915920 aaaagcagtcagttt
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3506073 15 +   7543664 aaaagcagtcagttt
i manLeu1.NW_012103476v1    C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e macNem1.NW_012015021v1      4985129  0 -  30496662 C
e macFas5.chr3              167349089  0 - 192294377 C
e rheMac8.chr3              160714412  0 - 185818997 C
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e colAng1.NW_012120598v1      5274187 56 -  13750039 I
e chlSab2.chr2               19998488  0 -  90373283 C

a score=218876.000000
s hg38.chr21_GL383579v2_alt    135999 276 +    201197 tttttttttttt--ttttttttttttgacagagtctcattctgtcacccaggctggagtgcagtggcacgatctcagcttactgcaagctccgcctccca---ggttcatgccattctcctgcctcagcctcccaagcagctgggactataggtgcccgccaccatgcctgcctaa-----ttttttttgtatttttagtagagacggggtttcaccatgttagccagatggtctcgatctcctgacctcgtgatctgcccaccttagcctcccaaagtgctggga
s panTro5.chr21               8754768 258 +  33445071 tttttt--------------------gacagagtctcattctgtcacccaggctggagtgcagtggtgcgatctcagcttactgcaagctccgcctccca---ggttcatgccattctcctgcctcagcctcccaagcagctgggactataggtgcctgccaccatgcctgcctaa-----ttttttttgtatttttagtagagacagggtttcaccatgttagccagatggtctcgatctcctgacctcgtgatccgcccacctcagcctcccaaagtgctggga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22293877 258 +  46275980 tttttt--------------------gacagagtctcattctgtcacccaggctggagtgcagtggtgcgatctcagcttactgcaagctccgcctccca---ggttcatgccattctcctgcctcagcctcccaagcagctgggactataggtgcctgccaccatgcctgcctaa-----ttttttttgtatttttagtagagacggggtttcaccatgttagccagatggtctcgatctcctgacctcgtgatccgcccacctaagcctcccaaagtgctggga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276490 270 -  13858734 tttttt---------tttttttttttgacagagtctcattctgtcacccaggctggagtgcagtggcgcgatctcagctcactgcaacctccgcctccca--gggttcatgccattctcctgcctcagcctcccaagtacctgggactataggtgcccgccaccatgcctgcctaa-----ttttttttgtatttttagtagagacggggtttcaccatgttagccagatggtctcgatctcctgacctcatgatccgcccacctcagcctcccaaagtgctggga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9300837 286 +  32716333 ttttttttttttgcttttttttttttaatggagtctcactctgtcacccaggctggagtgcagtggcgggatctcagctcactgcaagctccgcctcccagggagttcatgccattctcctgtctcagcttcccgagtagctgggactacaggtgcccaccaccacgccgggctaatttttttttttttgtatttttagtagagatagggtttcactgtgttagccagatggtctcgatctcctgacctcgtgatctgcccacctcagcctcccaaagtgctggga
i nomLeu3.chr25             C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cerAty1.NW_012002954v1     13497572   0 +  21915920 C
e macNem1.NW_012015021v1      4985129   0 -  30496662 C
e macFas5.chr3              167349089   0 - 192294377 C
e rheMac8.chr3              160714412   0 - 185818997 C
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771  18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e colAng1.NW_012120598v1      5274187  56 -  13750039 I
e manLeu1.NW_012103476v1      3506088   0 +   7543664 C
e chlSab2.chr2               19998488   0 -  90373283 C

a score=60426.000000
s hg38.chr21_GL383579v2_alt    136275 15 +    201197 aaaagcagtcagttt
s panTro5.chr21               8755026 15 +  33445071 aaaagcagtcagttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22294135 15 +  46275980 aaaagcagtcagttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276760 15 -  13858734 aaaagcagtcagttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9301123 15 +  32716333 aaacacagtcagttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160714412 15 - 185818997 aaaagcagtcagttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167349089 15 - 192294377 aaaagcagtcagttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4985129 15 -  30496662 aaaagcagtcagttt
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               19998488 15 -  90373283 aaaagcagtcagttt
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5274243 15 -  13750039 aaaagcagtcagttt
i colAng1.NW_012120598v1    I 56 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cerAty1.NW_012002954v1     13497572  0 +  21915920 C
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e manLeu1.NW_012103476v1      3506088  0 +   7543664 C

a score=3380018.000000
s hg38.chr21_GL383579v2_alt    136290 618 +    201197  
s panTro5.chr21               8755041 619 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22294150 619 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8276775 618 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9301138 619 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160714427 613 - 185818997  
i rheMac8.chr3              C 0 I 5
s macFas5.chr3              167349104 610 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4985144 613 -  30496662  
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13497572 618 +  21915920  
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               19998503 618 -  90373283  
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3506088 618 +   7543664  
i manLeu1.NW_012103476v1    C 0 I 1
s colAng1.NW_012120598v1      5274258 618 -  13750039  
i colAng1.NW_012120598v1    C 0 I 1
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771  18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=4226.000000
s hg38.chr21_GL383579v2_alt    136908 2 +    201197 cc
s panTro5.chr21               8755660 2 +  33445071 cc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22294769 2 +  46275980 cc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8277393 2 -  13858734 cc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9301757 2 +  32716333 tc
i nomLeu3.chr25             C 0 C 0
s macNem1.NW_012015021v1      4985758 1 -  30496662 -c
i macNem1.NW_012015021v1    I 1 I 5
s cerAty1.NW_012002954v1     13498191 1 +  21915920 -c
i cerAty1.NW_012002954v1    I 1 I 5
s chlSab2.chr2               19999122 1 -  90373283 -c
i chlSab2.chr2              I 1 I 5
s manLeu1.NW_012103476v1      3506707 1 +   7543664 -c
i manLeu1.NW_012103476v1    I 1 I 5
s colAng1.NW_012120598v1      5274877 1 -  13750039 -c
i colAng1.NW_012120598v1    I 1 I 5
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e macFas5.chr3              167349714 0 - 192294377 C
e rheMac8.chr3              160715040 5 - 185818997 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=23580.000000
s hg38.chr21_GL383579v2_alt    136910 28 +    201197 attgcctagtggagctgtgagaagaggg
s panTro5.chr21               8755662 28 +  33445071 actgcctagtggagctgtgagaagaggg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22294771 28 +  46275980 actgcctagtggagctgtgagaagaggg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8277395 28 -  13858734 attgcctagtggagctgtgagaagaggg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9301759 28 +  32716333 actgcctagtggagctctgagaagaggg
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167349714  4 - 192294377 ------------------------aggg
i macFas5.chr3              C 0 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cerAty1.NW_012002954v1     13498192  5 +  21915920 I
e macNem1.NW_012015021v1      4985759  5 -  30496662 I
e rheMac8.chr3              160715040  5 - 185818997 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e colAng1.NW_012120598v1      5274878  5 -  13750039 I
e manLeu1.NW_012103476v1      3506708  5 +   7543664 I
e chlSab2.chr2               19999123  5 -  90373283 I

a score=2800.000000
s hg38.chr21_GL383579v2_alt    136938 2 +    201197 cc
s panTro5.chr21               8755690 2 +  33445071 cc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22294799 2 +  46275980 cc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8277423 2 -  13858734 cc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9301787 2 +  32716333 cc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160715045 1 - 185818997 -c
i rheMac8.chr3              I 5 I 1
s macFas5.chr3              167349718 1 - 192294377 -c
i macFas5.chr3              C 0 I 5
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cerAty1.NW_012002954v1     13498192 5 +  21915920 I
e macNem1.NW_012015021v1      4985759 5 -  30496662 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771 18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I
e colAng1.NW_012120598v1      5274878 5 -  13750039 I
e manLeu1.NW_012103476v1      3506708 5 +   7543664 I
e chlSab2.chr2               19999123 5 -  90373283 I

a score=1981870.000000
s hg38.chr21_GL383579v2_alt    136940 380 +    201197 accatcctgcagaccccaaaatggtagatccactgacagcttgtaccatgtgccagtaaaagctgcagacactcaatgcaagcctgtgaaaacagctggcagggggtctataccctgcaaagccat-gaggcagagctttccaaggccatgggagacaa-ctcctgcatcagcatgacctggatgtgagacatggagtcaaaggagatcaatttagagctttaagatttggctgccccactggatttcagacttgcctggggcctttagcccctttgttttggccattttctccaatttggaatgggtgtatttaccaaatacttgtaacctccat--tgtatctaggaagtaactgacttgcttctgatttttacaggctcat
s panTro5.chr21               8755692 380 +  33445071 accatcctgcagaccccaaaatggtagatccattgacagcttgtaccatgtgccagtaaaagctgcagacactcaatgcaagcctgtgaaaacagctggcagggggtctataccctgcaaagccac-gaggcagagctttccaaggccatgggagacaa-ctcctgcatcagcatgacctggatgtgagacatggagtcaaaggagatcaatttagagctttaagatttggctgccccactggatttcagacttgcctggggcctttagcccctttgttttggccattttctccaatttggaatgggtgtatttaccaaatacttgtaacctccat--tgtatctaggaagtaactgacttgcttctgatttttacaggctcat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22294801 380 +  46275980 accatcctgcagaccccaaaatggtagatccactgacagcttgtaccatgtgccagtaaaagctgcagacactcaatgcaagcctgtgaaaacagctggcagggggtctataccctgcaaagccac-gaggcagagctttccaaggccatgggagacaa-ctcctgcatcagcatgacctggatgtgagacatggagtcaaaggagatcaatttagagctttaagatttggctgccccactggatttcagacttgcctggggcctttagcccctttgttttggccattttctccaatttggaatgggtgtatttaccaaatacttgtaacctccat--tgtatctaggaagtaactgacttgcttctgatttttacaggctcat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8277425 380 -  13858734 accatcctgcagaccccaaaatggtagatccattgacagcttgtaccatgtgccagtaaaagctgcagacactcaatgcaagcctgtgaaaacagctggcagggggtccataccctgcaaagccac-aaggcagagctttccaaggccgtgggagacaa-ctcctgcatcagcatgacctggatgtgagacatggagtcaaaggagatcaatttagagctttaagatttggctgccccactggatttcagacttgcctggggcctttagcccctttgttttggccattttctccgatttggaatggttgtatttaccaaatacttgtaacctcgat--tgtatctaggaagtaactgacttgcttctgatttttacaggctcat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9301789 367 +  32716333 ------------accccaaaatggtagatccaccgacagcttgtaacatgtgccagtaaaagctgcagacactcaatgtaagcctgtgaaaacagctggcacataggctataccctgcaaagccac-gaggcagacctttccaaggccatgggagcccatctcttgcatcagcgtgacctgaatgtgagacatggagtcaaatgagatc-atttaaagctttaagaattggctgccccactggatttcagacttgcctggggcctttagcccctttgttttggccattttctccaatttcgaatgggtgtatttaccaaatacctgtaacctccat--tctatctaggaagtaactgacttgcttttga-ttttacaggctcat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160715047 379 - 185818997 accattctccagaccccagaatagtagatccactgacagtttgtaccatgtgccaggaaaagctgcagacactcaatgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggcagagctgcccaaggccatgggagcccatctcttgcatcagcatgagctggatgtgagacacggagtcaaaggagatcattttagagctttaagatttggctgccccgctggatttcagacttgcgtggggcctttagtccc-tcgttttggccaatttctcccattttgaatgaatgtattaaccaaatacctgtaccctc-at--tatatctaggaagtaactgactttctgttga-ttttacaggcttat
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167349724 379 - 192294377 accattctccagaccccagaatagtagatccactgacagtttgtaccatgtgccaggaaaagctgcagacactcaatgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggcagagctgcccaaggccatgggagcccatctcttgcatcagcatgaggtggatgtgagacacggagtcaaaggagatcattttagagctttaagatttggctgccccgctggatttcagacttgcgtggggcctttagtccc-tcgttttggccaatttctcccattttgaatgaatgtattaaccaaatacctgtaccctc-at--tatatctaggaagtaactgactttctgttga-ttttacaggcttat
i macFas5.chr3              I 5 C 0
s macNem1.NW_012015021v1      4985764 379 -  30496662 accattctccagaccccagaatagtagatccactgacagtttgtaccatgtgccaggaaaagctgcagacactcagtgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggcagagctgccccaggccatgggagcccatctcttgcatcagcatgagctggatgtgagacacggagtcaaaggagattattttagagctttaagatttggctgccccgctggatttcagacttgcgtggggcctttagtccc-tcgttttggccaatttctcccattttgaatgaatgtattaaccaaatacctgtaccctc-at--tatatctaggaagtaactgactttctgttga-ttttacaggcttat
i macNem1.NW_012015021v1    I 5 C 0
s cerAty1.NW_012002954v1     13498197 379 +  21915920 accattctccagaccccagaataatagatccactgacagtttgtaccatgtgccaggaaaagctgcagacactcaatgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggcggagctgcccaaggccatgggagcccatctcttgcatcagcatgagctggatgtgagacacggagtcaaaggagatcattgtagagctttaagatttggctgccccgctggatttcagacttgtgtggggccttcagtccc-tcgttttggccaatttctcccatttggaatgaatgtattaaccaaatacctgtaccctc-at--tatatctaggaagtaactgactttctgttga-ttttacaggcttat
i cerAty1.NW_012002954v1    I 5 C 0
s chlSab2.chr2               19999128 381 -  90373283 accattctccagaccccagaatagtagatccactgacagtttgtaccatgtgccaggaaaagctgcagacactcagtgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggtggagctgcccaaggccatgggagcccatctcttgcatcagcatgagctggatgtaagacatggagtctaaggagatcattttagagctttaagatttggctgccccgctggatttcagacttgcgtggggcctttagtccc-tcgttttggccaatttctcccatttggaatgaatgtattaaccaaatacctgtaccctc-gttatatatctaggaagtaactgactttctgttga-ttttacaggcttat
i chlSab2.chr2              I 5 C 0
s manLeu1.NW_012103476v1      3506713 379 +   7543664 accattctccagaccccagaatagtagatccactgacagtttgtaccatgtgccaggaaaagctgcagacactcaatgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggcggagctgcccaaggccatgggagcccatctcttgcatcagcatgagctggatgtgagacacggagtcaaaggagatcattttagagctttaagatttggctgccccgctggatttcagacttgcgtggggcctttagtccc-tcgttttggccaatttctcccatttggaatgaatgcattaaccaaatacctgtaccctc-at--tatatctaggaagtaactgactttctgttga-ttttacaggcttat
i manLeu1.NW_012103476v1    I 5 C 0
s colAng1.NW_012120598v1      5274883 377 -  13750039 accattctcgagaccccagaatagtagatccactgacagcttgtaccatgtgccaggaaaagctgcagacactcaatgcaagcctgtgaaagcagctgggatgggggctgtaccctgcaaagccacaggggcggagctgcccaaagccatgggagcccatctcttgcatcagcatgagctggatgtgagacatggagtcaaa--agatcattttagagctttaagatttggctgccctgctggatttcagacttgcatggggcctttagtccc-ttgttttggccaatgtctcccgtttggaatgaatgtattaaccaagtacctgtaccctc-at--tatatctaggaagtagctgactttctgttga-ttttaaaggcttat
i colAng1.NW_012120598v1    I 5 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e calJac3.chr21              26530829 1005 +  50472720 I
e saiBol1.JH378168            8711771  18 +  13128814 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=34190.000000
s hg38.chr21_GL383579v2_alt    137320 6 +    201197 aggcag
s panTro5.chr21               8756072 6 +  33445071 aggcag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22295181 6 +  46275980 aggcag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8277805 6 -  13858734 aggcag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9302156 6 +  32716333 gggcag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160715426 6 - 185818997 aagcag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167350103 6 - 192294377 aagcag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4986143 6 -  30496662 aagcag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13498576 6 +  21915920 aagcag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19999509 6 -  90373283 aagcag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3507092 6 +   7543664 aagcag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5275260 6 -  13750039 aagcac
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26531834 6 +  50472720 agacac
i calJac3.chr21             I 1005 C 0
s saiBol1.JH378168            8711789 6 +  13128814 agacac
i saiBol1.JH378168          I 18 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e cebCap1.NW_016107322v1     13955135 125 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=3649589.000000
s hg38.chr21_GL383579v2_alt    137326 456 +    201197 aaggcacttgccttgtct--gatgagactttggacttggacttttgagttaatgctgcaatgaagtaagagtttgggggactgttggaatgacatgattctgttttaaaatgtgaggacatgagatttgagagaggccaggggcagaatgatatggtttggatgtctcctcacccaaatctcatcttgaatta---tagtacccatatttcccatgtgtcctgggatagaccaggtggagataaatgaatcatgagggtggattccccatcttcttcttttgatagcgagctagttgtcgctagatctaatggttttataaggggcttcctc----ctatgctgggcactcatttgtcttcttcctgctgccatgtgatgtaggatttttttgctttccctttctccgtgattgcaagtttcctgaagcctcccaagccaggcagaactgtgagtcaatgaaact
s panTro5.chr21               8756078 456 +  33445071 aaggcacttgccttgtct--gatgagactttggacttggacttttgagttaatgctgcaatgaagtaagagtttgggggactgttggaatgacatgattctgttttaaaatgtgaggacatgagatttgagagaggccaggggcagaatgatatggtttggatgtctcctcacccaaatctcatcttgaatta---tagtacccatattccccatgtgtcctgggatagaccaggtggagataaatgaatcatgagggtggattccccatcttgttcttttgatagcgagctagttgtcgctagatctgatggttttgtaaggggcttcctc----ctatgctgggcactcatttgtcttcttcctgctgccatgtgatgtaggatttttttgcttcccctttctccatgattgcaagtttcctgaagcctcccaagccaggcagaactgtgagtcaatgaaact
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22295187 456 +  46275980 aaggcacttgccttgtct--gatgagactttggacttggacttttgagttaatgctgcaatgaagtaagagtttgggggactgttggaatgacatgattctgttttaaaatgtgaggacatgagatttgagagaggccaggggcagaatgatatggtttggatgtctcctcacccaaatctcatcttgaatta---tagtacccatattccccatgtgtcctgggatagaccaggtggagataaatgaatcatgagggtggattccccatcttgttcttttgatagcgagctagttgtcgctagatctgatggttttgtaaggggcttcctc----ctatgctgggcactcatttgtcttcttcctgctgccatgtgatgtaggatttttttgcttcccctttctccatgattgcaagtttcctgaagcctcccaagccaggcagaactatgagtcaatgaaact
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8277811 456 -  13858734 aaggcacttgccttgtct--gatgagactttggacttggacttttgagttaatgctgcaatgaagtaagagtttgggggactgttagaatgacatgattctgttttaaaatgtgaggacatgagatttgagagaggacaggggcagaatgttatggtttggatgtctcctcacccaaatctcatcttgaatta---tagtacccatattccccatgtgtcctgggatagaccaggtgtagataaatgaatcgtgagggtggattccccatcttgttcttttgatagcgagctagttgtcgctagatctgatggttttataaggggcttcctc----ctatgctgggcactcatttgtcttcttcctgctgccatgtgatgtaggatttttttgcttcccctttctccatgattgcaagtttcctgaagcctcccaagccaggcagaactgtgagtcaatgaaact
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9302162 458 +  32716333 aaggcacttgccttgtcttagatgagacttttgacttgcacttttgagttcatgctgcaatgagttaagagtttgggggactgttggaatgacatgattctgttttgaaatgtgaggacatgagatttgagagaggccaggggcagaatgatatggtttggttgtctcctcacccaaatctcatcttgaatta---tagttcccatattccccatgtgtcttgggatagaccaggtggagacaaatgcatcatgagggtggattccccatcttgttcttttgatagcaatctagttgtcactagatctgatggttttataaggggcttcctc----ctatgctgggcactcatttgtcttcttcctgctgccatgtgttgtaggatttgtttgcttcccctttctccatgattgcaagtttcccaaagcctcccaagccatgcagagcggtgagccaatgaaaca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160715432 455 - 185818997 aaggcacttgccttgtgtcagatgagactatggacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttggaatggcatgattgcattttgaaatgtgaggacatgaaatttgagagagacc-agggcagaataatatggtttggcggtgtcctcacccaaatctcatcttgaatta---tagttcccataatccccatgtgtcctgggagggaccaggtggagataaatgatccataggggtggattccccatcgtgttcttttgagagcaagttagttgtcgctggatctgatggttttataa--ggcttcctc----ttatgctgggcactcatttgtcttcttcctgcagccatgtaatgcaggatgtgtttgcttctccttttgccatgattgtaactttcctgaagcttcctcagccatgcagaatgctgagtcaattaaacc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167350109 455 - 192294377 aaggcacttgccttgtgtcagatgagactatggacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttggaatggcatgattgcattttgaaatgtgaggacatgaaatttgagagagacc-agggcagaataatatggtttggcggtgtcctcacccaaatctcatcttgaatta---tagttcccataatccccatgtgtcctgggagggaccaggtggagataaatgatccataggggtggattccccatcgtgttcttttgagagcaagttagttgtcgctggatctgatggttttataa--ggcttcctc----ttatgctgggcactcatttgtcttcttcctgcagccatgtaatgcaggatgtgtttgcttctccttttgccatgattgtaactttcctgaagcttcctcagccatgcagaatgctgagtcaattaaacc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4986149 455 -  30496662 aaggcacttgccttgtgtcagatgagactatggacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttggaatggcatgattgcattttgaaatgtgaggacatgaaatttgagagagacc-ggggcagaataatatggtttggcggtgtcctcacccaaatctcatcttgaatta---tagttcccataatccccatgtgtcctgggagggacccggtggagataaatgatccataggggtggattccccatcgtgttcttttgagagcaagttagttgtcgctggatctgatggttttataa--ggcttcctc----ttatgctgggcactcatttgtcttcttcctgcagccatgtaatgcaggatgtgtttgcttctccttttgccatgattgtaactttcctgaagcttcctcagccatgcagaatgctgagtcaattaaacc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13498582 455 +  21915920 aaggcacttgccttgtgtcagatgagactatggacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttggaatggcatgattgcattttgaaatgtgaggacatgaaatttgagagagacc-ggggcagaataatatggtttggcggtgtcctcacccaaatctcatcttgaatta---tagttcccataatccccgtgtgtcctgggagggaccaggtggagataaatgaaccataggggtggattccccatcttgttcttttgatagcaagttagttgttgctggatctgatggttttataa--ggcttcttc----ttatgctgggcactcatttgtcttcttcctgcagccatgtaatgcaggatgtgtttgcttctccttttgccatgattgtaactttcctgaagcttcctcagccatgcagaatgctgagtcaattaaacc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19999515 455 -  90373283 aaggcacttgccttgtgtcagatgagactatggacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttggaatggcatgattgcattttgaaatgtgaggacatgaaatttgagagagacc-ggggcagaataatatggtttggtggtgtcctcacccaaatctcatcttgaatta---tagttcccataatccccatgtgtcctgggagggaccaggtggagataaatgatccataggggtggattccccatcttgttcttttgatagcaagttagttgtcactggatctgatggttttataa--ggcttcctc----ttatgctgggcactcatttgtcttcttcctgcagccatgtaatgcaggctgtgttttcttctccttttgccatgattgtaactttcctgaagcttcctcagccatgcagaatgctgagtcaattaaacc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3507098 455 +   7543664 aaggcacttgccttgtgtcagatgagactatggacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttggaatggcatgattgcattttgaaatgtgaggacatgaaatttgagagagact-ggggcagaataatatggtttgggggtgtcctcaccgaaatttcatcttgaatta---tagttcccataatccccatgtgtcctgggagggaccaggtggagataaatgaaccataggggtggattccccatcttgttcttttgatagcaagttagttgttgctggatctgatggttttataa--ggcttcttc----ttatgctgggcactcatttgtcttcttcctgcagccatgtaatgcaggatgtgtttgcttctccttttgccatgattgtaactttcctgaagcttcctcagccatgcagaatgctgagtcaattaaacc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5275266 455 -  13750039 aaggcacttgccttatgtcagatgagactatgaacttggacttttgagttaatgctgcaatgaattaagagtttgggggactgttgaattggcatgattgtgttttgaaatatgaggacatgagatttgagagagacc-agggcagaatgatatggtttggctgtgttctcacccaaacctcatcttgaatta---tagttcccataatccccatgtgtcctgggagggaccaggtggaggtaaatgaaccataggggtggattccccatcttgttcttttgatagcaagttagttgtcactggatttgatggttttataa--ggcttcctc----ttatgctgggcactcatttgtcttcttcctgcaaccatgtaatgcaggatatgtttgcttctcctttcgccatgattgtaactttcctgaagcctcctcagccatgcagaatggtgagtcaattaaacc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26531840 464 +  50472720 aaggcacttgtcttgtctcagatgagactttggacttggacttttgagttaatgctgcaactaattaagagtttgggggactgctggaatggcatgattgtattctgaaatgtgaggacacgagattttagagaggccacggacaaaatgatatggtttggctgtatccacactcgaatctcatcttaaatgagatgagattccatagtccccgtgtgtcccaggagggaacaagtggagataattaaatcactagaatgtatcccccatcttgctcttttgatagcaagttagttgtcgctagatctattggttccataagtggcttcctcctatttatgctgggcactcatttatcttcttcctactgccatgtgatgtagtatgtgtttgcttacacttttaccataattgtaagttt-ctgaagcctccccagccatgcagaactttaagtcgattaaacc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8711795 461 +  13128814 aaggcacttaccttgtctcagatgagactttagactcggactttcgagttaatgctgcagttaattaagagtttgggggactgttggaatggcatgattgtattctgaaatgtgaggacatgagattttggaggggctgtggacaaaatgatattgtttggctgtatccacactcaagtctcatcttgaatta---tagttcccataatccccatgtgtcccaggagggaacaagtggggataattaaatcacgacaatgtactccccaccttgttcttttgatggcaagttagttgtcgctagatctgttggttctacaaggggcttcctcctacctatgctgggcactcatttgtcttcttcctactgccatgtgatgtcagatgtatttgcttccccttttgccatgattgtaagttt-ctgaagcctccccagccatgcagaactttgagtcagttaaacc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13955260 461 -  14377064 aaggcacttaccttgtctcagatgagactttggacttgtacttttgaattaattctgcaattaattgagagtttgggggactgttggaatggcatgattgtattctgaaatgtgaggacatgagattttagaggggccatggacaaaatgatatggtttggctgtatccacactcaaatctcaccttgaatta---tagttcccataatccccatgtgtcccaggagggaacaagtggagataattacatcacgacaatgtatcccctatcgtgttcttttgatagcaagtcagttgtcgctagatctgttggttctataaggggcttcctcctacctatgctgggcactcatttgtcttcttcctactgccatgtgatgtaggatgtgtttgctttcccttttaccatgattgtaagttt-tggaagcctccccagccatgtagaaatttgagtcaattaaacc
i cebCap1.NW_016107322v1    I 125 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9177785 812 -   9889416 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=245770.000000
s hg38.chr21_GL383579v2_alt    137782 24 +    201197 tctctcctttacaaattatcccat
s panTro5.chr21               8756534 24 +  33445071 tctctcctttacaaattatcccat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22295643 24 +  46275980 tctctcctttacaaattatcccat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278267 24 -  13858734 tctctcctttacaaattatcccat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9302620 24 +  32716333 tctctcctttacaaattatcccat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160715887 24 - 185818997 tctctcctttataaattatcccat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167350564 24 - 192294377 tctctcctttataaattatcccat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4986604 24 -  30496662 tctctcctttataaattatcccat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499037 24 +  21915920 tctctcctttataaattatcccat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               19999970 24 -  90373283 tctctcctttataaattatcccat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3507553 24 +   7543664 tttctcctttataaattatcccat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5275721 24 -  13750039 tctctcctttataaattatcccgt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532304 24 +  50472720 tctctgctacataaattatcccat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8712256 24 +  13128814 tctctcctttataaattatcccat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13955721 24 -  14377064 tccctcctttataaattatcccat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9178597 24 -   9889416 tctctccattataaattatcccat
i aotNan1.NW_018487195v1    I 812 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512 23 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24896122 1452 -  38779656 I

a score=987078.000000
s hg38.chr21_GL383579v2_alt    137806 107 +    201197 cttgggtatgtc-tttattagcagcataagaacaaacttttacaCATTACTAATACATTATCAATTCAAATTCATGACTCTTGCAACATCA---ACTGTGAAGTTGATT---------AG
s panTro5.chr21               8756558 107 +  33445071 cttgggtatgtc-tttattagcagcataagaacaaacttttacaCATCACTAATACATTATCAATTCAAATTCATGACTCTTGCAACATCA---ACTATGAAGTTGATT---------AG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22295667 107 +  46275980 cttgggtatgtc-tttattagcagcataagaacaaacttttacaCATCACTAATACATTATCAATTCAAATTCATGACTCTTGCAACATCA---ACTATGAAGTTGATT---------AG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278291 107 -  13858734 cttaggtatgtc-tttattagcagcataagaacaaacttttacaCATTACTAATACATTATCAATTCAGATTCATGACTCTTGCAACATCA---ACTATGAAGTTGATT---------AG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9302644 107 +  32716333 cttgggtatgtc-tttattggcagcataagaacaaacttatacaCATTACTAATACATTATCAATTCAAATTCATGGCTCTTGCAACATCA---ACTATGAAGTTGATT---------AG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160715911 103 - 185818997 cttgggtatgtc-tttattagcagcatgagaacaaacGTGTACACATTACTAAT----TATCAGTTCAAATTCTTGGCTCTTGAAACATCA---ACTATGAAGTTGATT---------AG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167350588 103 - 192294377 cttgggtatgtc-tttattagcagcatgagaacaaacGTGTACACATTACTAAT----TATCAGTTCAAATTCTTGGCTCTTGAAACATCA---ACTATGAAGTTGATT---------AG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4986628 103 -  30496662 cttgggtatgtc-tttattagcagcatgagaacaaacgggtacaCATTACTAAT----TATCAGTTCAAATTCTTGGCTCTTGAAACATCA---ACTATGAAGTTGATT---------AG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499061 103 +  21915920 cttgggtatgtc-tttattagcagcatgagaacaaacgtatacaCATTACTAAT----TATCAGTTCAAATTCTTGGCTCTTGAAACATCA---ACTATGAAGTTGATT---------AG
i cerAty1.NW_012002954v1    C 0 I 224
s chlSab2.chr2               19999994 103 -  90373283 cttgggtatgtc-tttattagcagcatgagaacaaacgtatacaCATTACTAAT----TATCAGTTCAAATTCTTGGCTCTTGAAACATCA---ACTATGAAGTTGATT---------AG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3507577 103 +   7543664 cttgggtatgtc-tttattagcagcatgagaacaaacgtatacaCATTACTAAT----TATCAGTTCAAATTCTTGGCTCTTGAAACATCA---ACTATAAAGTTGATT---------AG
i manLeu1.NW_012103476v1    C 0 I 211
s colAng1.NW_012120598v1      5275745 107 -  13750039 cttgggtatgtc-tttattagcagcacgagaacaaacttatacaCATTACTAATACAATATCAATTGAAATTCTTGGCTCTTGAAACATCA---ACTATGAAGTTGATT---------AG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532328  99 +  50472720 cttgagtatgtc-ttttttagcagcatgagagaaa--------acattactaatacaTTATCAATTCAAATTCATGGCTCTTGCGACATCA---ACTATGAAGTAGATT---------AG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8712280 107 +  13128814 cttgaatgtgtc-ttttttagcagcatgagagcaaacttgtacaCATTACTAATACATTATCAATTCAAATTCATGGCTCTTGCAACATTA---ACTATGAAGTAGATT---------AG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13955745 117 -  14377064 cttgagtgtgtctttttttaacagcacgagagcaaacttgtacaCATTACTAATACATTATCAATTTAAATTCATGGCTCTTGCAACATCA---ACTATGAAGTACTCCGTAGTATGAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9178621 107 -   9889416 cttgagtgtgtc-ttttttagcagcatgagagcaaacttgtacaCATTACTAATACACTATCAATTCAAATTCATGACTCTTGCAACATCA---ACTATGAAGTAGATT---------AG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24897574  91 -  38779656 cttggttatgtt-tttctg--------gagaac-----------cttTACAAATGAATAATCTGCTCACATTTACGGCTCCTGCCACATCAACTACTACAAAGTTGGTT---------AG
i otoGar3.GL873528          I 1452 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e dasNov3.JH578070            2422512  23 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=4433373.000000
s hg38.chr21_GL383579v2_alt    137913 449 +    201197 AACTTCATAGTTCTAATGAAGGAACTGTGGAAGTCTAAGCAACTCTTTGTTACAGAAAAGTAAAGAAAACATACATGAGACATTAGTTTGTAATTGGGT-AAAAATACTAAACACATTAATTTCAAAATTTAATTCTGG----ATATTTCAATAAGAAAAGTAATTTTATTA-AA-TTTTTTTTTGCATTCCTCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAGTCATAACCAAAA-ACTATTGAT------GTTGCTACATAACTGAG--AATCTGAGAATCTTGCCGAAGATAAAGGAACACAAATTAGGTGCATGTTAA------TAAGCCTTTGATAATAGACAAAGGATTTTGGGGTTTTAGCCTGGATATAGTATGGTGCTAGTTGCAGATGATATAAATGAAGTGAAATAATTAGGCAAGTATTTAGAAA-----TGTTTGGCAGCAATGTG
s panTro5.chr21               8756665 449 +  33445071 AACTTCATAGTTCTAATGAAGGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAAGTAAAGAAAACATACATGAGACATTAGTTTGTAATTGGGT-AAAAATACTAAACACATTAATTTCAAAATTTAATTCTGG----ATATTTCAATAAGAAAAGTAATTTTATTA-AA-TTTTTTTTTGCATTCCTCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAGTCATAACCAAAA-ACTATTGAT------GTTGCTACATAACTGAG--AATCTGAGAATCTTGCAGAAGATAAAGGAACACAAATTAGGTGCATGTTAA------TAAGCCTTTGATAATAGACAAAGGATTTTGGGGTTTTAGCCTGGATATAGTATGGTGCTAGTTGCAGATGATATAAATGAAGTGAAATAATTAGGCAAGTATTTAGAAA-----TGTTTGGCAGCAATGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22295774 449 +  46275980 AACTTCATAGTTCTAATGAAGGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAAGTAAAGAAAACATACATGAGACATTAGTTTGTAATTGGGT-AAAAATACTAAACACATTAATTTCAAAATTTAATTCTGG----ATATTTCAATAAGAAAAGTAATTTTATTA-AA-TTTTTTTTTGCAGTCCTCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAGTCATAACCAAAA-ACTATTGAT------GTTGCTACATAACTGAG--AATCTGAGAATCTTGCAGAAGATAAAGGAACACAAATTAGGTGCATGTTAA------TAAGCCTTTGATAATAGACAAAGGATTTTGGGGTTTTAGCCTGGATATAGTATGGTGCTAGTTGCAGATGATATAAATGAAGTGAAATAATTAGGCAAGTATTTAGAAA-----TGTTTGGCAGCAATGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278398 447 -  13858734 AACTTCATAGTTCTAATGAAGGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAAGTAAAGAAAACATACATGAGAGATTAGTTTGTAATTGGGT-AAAAATACTAAACACATTAATTTCAAAATTTAATTCTGG----ATATTTCAATAAGAAAAGTAATTTTATTA-AA--TTTTTTTTGCATTCCTCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAGTCATAACCAAAA-ACTATTGAT------GTTGCTACATAACTGAG--AATCTGAGAATCTTGCAGAAGATAAA-GAACACAAATTAGGTGCATGTTAA------TAAGCCTTTGATAATAGACAAAGGATTTTGGGGTTTTAGCCTGGATATAGTATGGTGCTAGTTGCAGATGATATAAATGAAGTGAAATAATTAGGCAAGTATTTAGAAA-----TGTTTGGCAGCAATGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9302751 448 +  32716333 AACTTCATAGTTCTAGTGAAAAAACTGTGAAAGTCTAAACAACTCTTTTTTACAGAAAAGT----AAAACATACATGAGACATTAGTTTGTAATCAGGT-AAAAATACTAAACACATTAATTTCAAAATTTAATTCTGGATAAATATTTCGATAAGAAAAGTAATTTTATTA-AT--TTTTTTTTGCATTTCGCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAGTCATAACCAAAA-ACTACTGAT------GTTGCTACATAATTGAG--AATCTGAGAATCTTGCAGAAGATAAAGGAACACAAATTAGGTGCACGTTAA------TAAGCCGTTGATAATAGACAAAGGATTGGGGGGTTTTAGCCTGGATATAGTAAGGTGCTAGTTGCAGATGATATAAATAAAGTGAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCCATATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160716014 451 - 185818997 AACCTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAATAAAAGAAAACATAAATGAAACATCAGTTTGTAATCAGGG-AAAAATACTAAACATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGCAATTTTATTT-AA---TTTTTTTGCATTTCTCTATGTAAATATACAAGAGACGTCACAATTTCTTCTAGCAAACAAGAATCATAACCAAAA-ACTATTGAT------GTTGTTACATAACTGAG--AATTTGAGAATCTTGTAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGGGTTTTGGCCTGGATATAGTAAGGTGCTAGTTGCAGATGTTATAAATAAAGTGAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCAATGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167350691 451 - 192294377 AACCTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAATAAAAGAAAACATAAATGAAACATCAGTTTGTAATCAGGG-AAAAATACTAAACATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGCAATTTTATTT-AA---TTTTTTTGCATTTCACTATGTAAATATACAAGAAACGTCACAATTTCTTCTAGCAAACAAGAATCATAACCAAAA-ACTATTGAT------GTTGTTACATAACTGAG--AATTTGAGAATCTTGTAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGGGTTTTGGCCTGGATATAGTAAGGTGCTAGTTGCAGATGTTATAAATAAAGTGAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCAATGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4986731 451 -  30496662 AACCTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAATAAAAGAAAACATAAATGAAACATCAGTTTGTAATCAGGG-AAAAATACTAAACATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGCAATTTTATTT-AA---TTTTTTTGCATTTCTCTATGTAAATATACAAGAGACGTCACAATTTCTTCTAGCAAACAAGAATCATAACCAAAA-ACTATTGAT------GTTGTTACATAACTGAG--AATTTGAGAATCTTGTAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGGGTTTTGGCCTGGATATAGTAAGGTGCTAGTTGCAGATGATATAAATAAAGTGAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCAATGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499388 451 +  21915920 aaCCTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAATAAAAGAAAACATAAATGAAACATCAGTTTGTAATCAGGG-AAAAATACTAAACATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGCAATTTTATTT-AA---TTTTTTTGCATTTCTCTGTGTAAATATACAAGAGACATCACAATTTCTTCTAGCAGACAAGAATCATAACCAAAA-ACTATTGAT------GTTGTTACGTAACTGAG--AATTTGAGAATCTTGTAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGGGTTTTGGCCTGGATATAGTAAGGTGCTAGTTGCAGATGATATAAATAAAGTGAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCAATGTG
i cerAty1.NW_012002954v1    I 224 C 0
s chlSab2.chr2               20000097 451 -  90373283 AACCTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAATAAAAGAAAACATAAATGAAACATCAGTTTGTAATAAAGG-AAAAATACTAAGCATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGCAATTTTATTT-TA---TTTTTTTGCATTTCTCTATGTAAATATACAAGAGATGTCACAATTTCTTCTAGCAAACAAGAATCATAACCAAAA-ACTATTGAT------GTTGTTACGTAACTGAG--AATTTGAGAATCTTGTAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGGGTTTTGGCCTGGATATAGTAAGGTGCTAGTTGCAGATGATATAAATAAAGTAAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCAATGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3507891 451 +   7543664 aaCCTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAATAAAAGAAAACATAAATGAAACATCAGTTTGTAATCAGGG-AAAAATACTAAACATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGCAATTTTATTT-AA---TTTTTTTGCATTTCTCTATGTAAATATACAAGAGACGTCACAATTTCTTCTAGCAGACAAGAATCATAACCAAAA-ACTATTGAT------GTTGTTACGTAACTGAG--AATTTGAGAATCTTGTAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGGGTTTTGGCCTGGATATAGTAAGGTGCCAGTTGCAGATGATATAAATAAAGTGAAATAATTAGGCAAGTATTTAGAAA-----CTTTTGGCAGCAATGTG
i manLeu1.NW_012103476v1    I 211 C 0
s colAng1.NW_012120598v1      5275852 446 -  13750039 AACTTCATAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACTCTTTGTTACAGAAAAT-----AAAACATAAATGAAACATCAGTTTGTAATCAGGG-AAAAATACTAAACATATTAATTTCAAAATTTAATTCTGGATAAATATTTTGATAAGAACAGTAATTTTATTT-AA---TTTTTTTGTATTTCTCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTGGCAAACAAGAGTCATAACCAGAA-ACTACTGAT------GTTGTTACATAACTGAG--AATCTGAGAATCTTGCAGAAGATAAAGGAACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAATGATTTTGGGGTTTTGGCCTGGATATAGTAAAGTGCTAGTTGCAGATGATATAAATAAAGTGAAATAATGAGGCAAGTATTTAGAAA-----CTTTTGGTAGCAATGTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532427 440 +  50472720 AACTTTGTAGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACACTTTTTTACAG--GAGTAAAGAAAACATATATGAGACATTAGTTTGCAATTAGAG-AAAAATACTAAACACATTAATTTCAAACTTTAATTCCAGATTAATATTTTGATAAGAATAGTGATTTTAT--------TTTTTATACATTTCTCTATGCAAATATACAAGAGAAGTCACAATTTCTTCCAGGAAATAAGAATCGTAACCCAAA-ACTCTTG-T------GTTGCTGGAGTCCTACGTAAATCTGAGAATCTTGCAAAAGGTAAAGGCACACAATTTAGGTACATGTTAG------TAAGCCCTTGATAATAGACAAAGGATTTTGGAGTTTTGGCCTGAATATAGTAAGGTACTAGTTGCAGATGATATAAATAAAGTGATATAATTA------CATTTAGAAA-----TTTTTGGAAGCAATGTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8712387 441 +  13128814 AACTTCGTAGTTCTAGTGAAAGAACTGTGAAAGTCGAAGCAACACTTTTTTTTA---CAGAAAAGTAAACATACATGAGACATTAGTTTGCAATCAGGGAAAAAATACTAAGCACATTAATTTCAAAATTTAATTCCAGATTAATATTTTGATAAGAACAGTAATTTTAT--------TTTTTATACATTTCTCTATGTAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAATCATAACCAAAA-ACTATTGAT------GTTGCTGGAGTCCTACGTAAATCTGAGAATCTTGCAAAAGGTAAAGGTAGACAAATTAGGTACATGTTAG------TAAGTCCTTGATAATCGACAAAGAATGTTGGAGTTTTGGCCTGAATATAGTAAGGTACTAATTGCAGATGATATAAATAAAGTGATACAATTA------CATTTAGAAA-----CTTTTGGAAACAATGTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13955862 443 -  14377064 AACTTCGTAGTTCTAGTGAAAGAACTGTGAAAGTCCAAGCAATACTTTTTTACAGAAAAGTAAAGAAAACATACATGAGACATTAGTTTGCAATCGGGA-AAAAATACTAAACACATTAATTTCAAAATTTAATTCCAGATTAATATTTTGATAAGAACAGTAATTTTAT--------TTTTTATACAATTCTCTATATAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAATCATAGCCAAAA-ACTATTGAT------GTTGCTGGAGTCCTACGTAAATCTGAGAATCTTGCAAAAAGTAAATGTACACAAATTAGGTACATGTTAA------TAAGCCCTTGATAATAGACAAAGGATTTTGGAGTTTTGGCCTGAATATAGTAAGGTACTATTTGCAGATGATATAAATAAAATGATATAATTA------CATTTAGAAA-----CTTTTGGAGGCAATGTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9178728 442 -   9889416 AACTTCG-AGTTCTAGTGAAAGAACTGTGAAAGTCTAAGCAACACTTTTTTACAGAAAAGTAAAGAAAACTTACATGAGACATTAGTTTGCAATCAGGGAAAAAATACCAAACACATTAATTTCAAAATTTAATTCCAGATTAATATTTTGATAAGAACAGTAATTTTAT--------TGTTTATACATTTCTCTATATAAATATACAAGAGAAGTCACAATTTCTTCTAGCAAATAAGAATCATAACCAAAA-ACTATTGAT------GTTGCTGGAGTCCTACGTAAATCTGAGAATCTTGCAAAAGGTAAAGTTACACAAATTAGGTACATGTTAG------TAAGCCCTTGATAAT-GACAAAGGATTTTGGAGTTTTGGCCTGAATATAGTAAGGTACTAGTTGCAGATGATATAAATAAAGTGATATAATTA------CATTTAGAAA-----CTTTTGGAAGCCATGTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24897665 397 -  38779656 AAATTCACAGAT--------------------------------TTTCACTGAAGAAAACAAAGGAAAACATA----GGGCAGAAGTTTGTAATCTGGAAAAAAATGAACAACACATTTATTTCAAGTTT--ATTTTGA----ATATTTTGATGAAGGCAACAATTTTATTTGAA---CTTTTCTTCCCATCTCTATGTAAATATGCCAAAAGAGTCTCAATCCTTTCTAACAAGTAAGAATAATGATGAAAACATTATAAATACATGGATTGTTAAA-ATCtgagtaaatgtgagaatctgacaggagattagattacacaaatgagg-acagggtag------taggcccttcataatag--aaaagattttgaacttttagcctgaatataataaaaggctagttatagatgattagcacattttaaaat-------------------aa-----cccctggtggcaacatg
i otoGar3.GL873528          C 0 I 3
s dasNov3.JH578070            2422535 460 +   3081153 AACATCAATGCACTAGTGAAAGAAATATTAACTTCTAACTAACACCTTGCTACAGAAAAGTAAGGGAAATGT----GGAACAGAGATCTGTGGTCAGTG-AAAGTTATGGAACACATTTATTTAAAAGGGTAATATTGATTACATATTTTAATAAAGAAAATAATTTCATTT-AAAGTTCCTTTAGTTTATCTCCACATAAA-ATATCAGATAAGAATCAATTCCTTCTAGCAAGTAAAAGGTTTTATCAGAA-ATT-TCAGT------TATGTTGGAAGCCCTGGAAAGCATGGTGACCtggtaaaagataaggctac-caaattaggtccaggataaaatatgaatgtcctagtaaataaacaaaggaatttggacatgtgtcctgaatatattatgccactattgatagaggataagaatgatatgagacgatcatgtgtgcattttggaatgattccttttgtatcaaggtg
i dasNov3.JH578070          I 23 C 0
e micMur3.chr31              23727540 615 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=876417.000000
s hg38.chr21_GL383579v2_alt    138362 78 +    201197 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGAAAA---GATAAGTATTTCCTGTAGTTGTCCAGTGTCAAAGTGATT
s panTro5.chr21               8757114 78 +  33445071 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGAAAA---GATAAGTATTTCCTGTAGCTGTCCAGTGTCAAAGTGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22296223 78 +  46275980 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGAAAA---GATAAGTATTTCCTGTAGCTGTCCAGTGTCAAAGTGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278845 81 -  13858734 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGAAAAGATGATAAGTATTTCCTGTAGTTGTCAGGTGTCAAAGTGGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9303199 78 +  32716333 AAGGATTTAATAGATGGCAACAGGCTAATGTCCAAAAAA---GAGAAGTATTTCCtgtagttgtccagggtcaaagtgatt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160716465 78 - 185818997 AAGGATTTAATAGATGGCAACAGACCAATGTCCAGTAAT---GGTAAGTATTTCCTGTAGTAGTCCAGGGTCAAAGTGATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167351142 78 - 192294377 AAGGATTTAATAGATGGCAACAGACCAATGTCCAGTAAT---GGTAAGTATTTCCTGTAGTAGTCCAGGGTCAAAGTGATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4987182 78 -  30496662 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGTAAT---GGTAAGTATTTCCTGTAGTAGTCCAGGGTCAAAGTGATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499839 78 +  21915920 AAGGATTTAATAGATGGCAACAGACTAATGTCCGGTAAT---GGTAAGTATTTCCTGTAGTAGTCCAGGGTCAAAGTGATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20000548 78 -  90373283 AAGGATTTAGTAGATGGCAACAGACTAATGTCCAGTAAT---GGTAAGTATTTCCTGTAGTAGTCCAGGGTCAAAGTGATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3508342 78 +   7543664 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGTAAT---GGTAAGTATTTCCTGTAGTAGTCCAGGGTCAAAGTGATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5276298 78 -  13750039 AAGGATTTAATAGATGGCAACAGACTAATGTCCAGTAAT---GGTAAGTATTTCCTGTAGAAGTCCAGGGTCAAAGTGATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532867 78 +  50472720 AAAGATTTAATAGATGGAAACAGACTAATGTCCAGAAGA---GATAAGTCTCTCCTGTTGTTGTCCAGGGCCAAAGTACCC
i calJac3.chr21             C 0 I 2
s saiBol1.JH378168            8712828 78 +  13128814 AAGGATTTAATAGATGGAAACAGACTAATGTCCAGAAAA---GATAAGTCTCTCCTGTTGTTGTCCAGGGTCAAAGTACCC
i saiBol1.JH378168          C 0 I 2
s cebCap1.NW_016107322v1     13956305 78 -  14377064 AAGGATTTAATAGATGGAAACAGACTAATGTCCAGAAGA---GGTAAGTCTCTCCTGTTGTTGTCCAGGGTCAAAGTACCC
i cebCap1.NW_016107322v1    C 0 I 41
s aotNan1.NW_018487195v1      9179170 78 -   9889416 AAGGATTTAATAGATGAAAACAGACTAATGTCCAGAAGA---GATAAGTCTCTCCTGTTGTTGTCCAGGGTCAAAGTACCC
i aotNan1.NW_018487195v1    C 0 I 2
s micMur3.chr31              23728155 78 +  47401472 AAGGATTTAATAGTTGGGAACAGACTAGTGGCCAGAGGA---GATAAGTATCTCTTGCAGTCCTCCAAGCTCAAAGTGATT
i micMur3.chr31             I 615 C 0
s otoGar3.GL873528           24898065 77 -  38779656 aaggatttaatagacagcaacagac-agtggccaaaaga---gataagtatctcttgcagtcctccagggtcaaagtggcc
i otoGar3.GL873528          I 3 C 0
s dasNov3.JH578070            2422995 58 +   3081153 -------------------gaaaaccagaggacag-aga---gatctgaatcttttgcagtggtccagggtaaaggtgatg
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=77860.000000
s hg38.chr21_GL383579v2_alt    138440 6 +    201197 --GGGCTA
s panTro5.chr21               8757192 6 +  33445071 --GGGCTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22296301 6 +  46275980 --GGGCTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278926 6 -  13858734 --GGGCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9303277 6 +  32716333 --gggcta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160716543 6 - 185818997 --GGGCTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167351220 6 - 192294377 --GGGCTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4987260 6 -  30496662 --GGGCTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499917 6 +  21915920 --GGGCTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20000626 6 -  90373283 --GGGCTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3508420 6 +   7543664 --GGGCTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5276376 6 -  13750039 --GGGCTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532947 6 +  50472720 --GGGCTG
i calJac3.chr21             I 2 C 0
s saiBol1.JH378168            8712908 6 +  13128814 --GGGCTA
i saiBol1.JH378168          I 2 C 0
s aotNan1.NW_018487195v1      9179250 6 -   9889416 --GGGCTA
i aotNan1.NW_018487195v1    I 2 C 0
s micMur3.chr31              23728233 6 +  47401472 --GGGCTA
i micMur3.chr31             C 0 I 573
s otoGar3.GL873528           24898142 6 -  38779656 --aggcta
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2423053 8 +   3081153 gggtgtta
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13956383 41 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=78094.000000
s hg38.chr21_GL383579v2_alt    138446 44 +    201197 GTACTAGTGCGACAGAGGTAGGAATTTaaaaaaaaaaaaaa-----------------------------------------------aaa
s panTro5.chr21               8757198 42 +  33445071 GTACTAATGCGACAGAGGTAGGAATTTTTTTTTTTAAAAAA-----------------------------------------------A--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22296307 41 +  46275980 GTACTAATGCGACAGAGGTAGGAATTTTTTTTTTTAAAAAA--------------------------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278932 41 -  13858734 GTACTAATGCGACAGAGGTAGGAATTTTTTTTTAAAAAAAA--------------------------------------------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9303283 38 +  32716333 gtactgatgcaacagaggtaggaatttttttt---aaaaaa--------------------------------------------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160716549 87 - 185818997 GTACTAATGAGACACAGGTAGGAATTA----AAAAAAAAAAGGCATTGGATTTTTTAGTTATTAAAGGCATTGGATTTTTTAGTTATTAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167351226 87 - 192294377 GTACTAATGAGACACAGGTAGGAATTA----AAAAAAAAAAGGCATTGGATTTTTTAGTTATTAAAGGCATTGGATTTTTTAGTTATTAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4987266 87 -  30496662 GTACTAATGAGACACAGGTAGGAATTT----AAAAAAAAAAGGCATTGGATTTTTTAGTTATTAAAGGCATTGGATTTTTTAGTTATTAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499923 45 +  21915920 GTACTAATGAGACACAGGTAGGAATTa----aaaaaaaaaa----------------------aaaaa--------------------aaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20000632 42 -  90373283 GTACTAATGAGACACAGGTAGGAATTT----AAAAAAAAAA----------------------AA-----------------------AAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3508426 41 +   7543664 GTACTAATGAGACACAGGTAGGAATTT-----AAAAAAAAA----------------------AA-----------------------AAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5276382 37 -  13750039 GTACTAATGAGATACAGGTAGATTTTT------------------------------------------------TTTTTTA------AAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532953 33 +  50472720 GCACTAAGGTGACAAAGGTAGGAATTATTTTTA----------------------------------------------------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8712914 33 +  13128814 GTACTAAGGTGACAAAGGTAGGAATTTTTTTTA----------------------------------------------------------
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9179256 33 -   9889416 GTACTAAGGTGACAAAGGTAGGAATTTTTTTTA----------------------------------------------------------
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24898148 41 -  38779656 atactaaggcaatagaagtatggatgggacaaaaaacagga--------------------------------------------------
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2423061 33 +   3081153 attctaaggcaattgtagtagggat------aaaaagaa----------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23728239 573 +  47401472 I
e cebCap1.NW_016107322v1     13956383 41 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=3128441.000000
s hg38.chr21_GL383579v2_alt    138490 315 +    201197 GGCATTGGAT---------TT------------------------------TTCAGTTACTAAAGAAATGGTATcaaagaaattttgtgaccaatttgatgctgggcataagtgagaagaaagagcaaacaataatcctcaggttcctgccatgaaccactggGCAAAGTTACTTACAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCAAATTTCGTTGTGTGCTGTTGAATTTGTTAGTTGAGG--AAAAA---AAAATGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
s panTro5.chr21               8757240 315 +  33445071 GGCATTGGAT---------TT------------------------------TTTAGTTACTAAAGAAATGGTATcaaagaaattttgtgaccaatttgatgctgggcataagtgagaagaaagagcaaacagtaatcctcaggttcctgccatgaaccactggGCAAAGTTACTTACAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCAAATTTCGTTGTGTGCTGTTGAATTTGTTAGTTGAGG--AAAAA---AAAATGAA--------AGGAATGGGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22296348 314 +  46275980 GGCATTGGAT---------TT------------------------------TTTAGTTACTAAAGAAATGGTATcaaagaaattttgtgaccaatttgatgctgggcataagtgagaagaaagagcaaacagtaatcctcaggttcctgccatgaaccactggGCAAAGTTACTTACAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCAAATTTCGTTGTGTGCTGTTGAATTTGTTAGTTGAGG---AAAA---AAAATGAA--------AGGAATGGGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8278973 317 -  13858734 GGCATTGGAT---------TT------------------------------TTTAGTTACTAAAGAAATGGTATcaaagaaattttgtgaccaatttgatgttgggcataagtgagaagaaagagcaaacaataatcctcaggttcctgccaagaaccactggGCAAAGTTACTTACAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCAAATTTCATTGTGTGCTGTTGAATTTGTTAGTCGAGGAAAAAAA---AAAATGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9303321 315 +  32716333 ggcattggat---------tt------------------------------tttagttactaaagaaatagtatcaaagaaattttgtgaccaatttgatgctgggcataagtgagaagaaagagcaaacaataatcctcaggttcctgccatgaaccattggGCAAAGTTACTTACAAAGAAAAGGAGAGCAGGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTTAAATTCCATTGTGTGCTGTTGAATTTGTTAGTTGAGG--AAAAA---AAAAAGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAAAGTAAATGA---CATAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160716636 348 - 185818997 GGCATTGGAT---------TTTTTAGTTATTAAAATTGGATTATTTAGTTATTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGCTGGGCATAAGTGAGAAGAAACAGCAAACAATAATCCTCAGTTTCCTGTCATGAACCATTGGGTGAAGTTACTTGCAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCAAATTCCATTGTGTGCTGTTGAATTTGTTAGTTAAGA--AAAAAGAGAAAATGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167351313 348 - 192294377 GGCATTGGAT---------TTTTTAGTTATTAAAATTGGATTATTTAGTTATTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGCTGGGCATAAGTGAGAAGAAACAGCAAACAATAATCCTCAGTTTCCTGTCATGAACCATTGGGTGAAGTTACTTGCAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCAAATTCCATTGTGTGCTGTTGAATTTGTTAGTTAAGA--AAAAAGAGAAAATGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4987353 348 -  30496662 GGCATTGGAT---------TTTTTAGTTATTAAAATTGGATTATTTAGTTATTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGCTGGGCATAAGTGAGAAGAAACAGCAAACAATAATCCTCAGTTTCCTGTCATGAACCATTGGGTGAAGTTACTTGCAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACACTTCAAATTCCATTGTGTGCTGTTGAATTTGTTAGTTAAGA--AAAAAGAGAAAATGAA--------AGGAATGTGTACTAAAATTCACAACATGGTAAGAGTAAATGA---CAGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13499968 318 +  21915920 GGCATTGGAT---------TT------------------------------TTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGCTGGGCATAAGTGAGAAGAAACAGCAAACAATAATCCTCAGTTTCCTGTCATGAACCATTGGGTGAAGTTACTTGCAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCGAATTCCATTGTGTGCTGTTGAATTTGTTAGTTAAGA--AAAAATAGAAAATGAA--------AGGAATGTGTACTACAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20000674 317 -  90373283 GGCATTGGAT---------TT------------------------------TTTAGTTATTAAAGAAATGGTATCAAAGAAATTTTGTGACCAATTTGATGCTGGGCATAAGTGAGAAGAAACAGCAAACAATAATCCTCAGTTTCCTGTCATGAACCATTGGGTGAAGTTACTTGCAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGGTAAGAATCTACC-TTTCCAACACACTTCGAATTCCACTGTGTGCTGTTGAATTTGTTAGTTAAGA--AAAAATAGAAAATGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3508467 318 +   7543664 GGCATTGGAT---------TT------------------------------TTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGCTGGGCATAAGTGAGAAGAAACAGCAAACAATAATCCTCAGTTTCCTGTCATGAGCCATTGGGTGACGTTACTTGCAAAGAAAAGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTCATCACAGAAGATAAGAATCTACCTTTTCCAACACGCTTCGAATTCCATTGTGTGCTGTTGAATTTGTTAGTTAAGA--AAAAATAGAAAATGAA--------AGGAATGTGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5276419 322 -  13750039 GGCATTGGAG---------TT------------------------------TTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGAGGCTGGGCATAAGTGCGAAGAAAGAGCAAACAATAATCCTCAGTTTCCTGTCATGAACTATTGGGTGAAGTTACTTGCAAAGAAAGGGAGAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATATTTCATCACAGAAGATAAGAATCTACCTTTTCCAATATGCTTCGTATTCCATTGTGTGCTGTTGAATTT----GTTAAGA--AAAAATAAAAAATGAAGGGAATATGGGAATATGTACTAAAATTCAAAACATGGTAAGAGTAAATGA---CATAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26532986 311 +  50472720 GGCATTG------------TT------------------------------GTTAGTTATTAAAGAAACGGGATCAAAGAAATTCTGTGACCAATTTGATGATGAACATAAGTAAGAAGAAAGGACAAATGATAATCCTCAGGTT-CTGTCACGAACCATTTGGTGAAGTCACTTGCAAATTAAAGGACAGCAAGAGAAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTTATCACAGAAGGTAAGAATCTACTCTTTACAGTATGCTTCAAATTTCATTGTGTGTTGTTGAATTTTTTATTTGAGA--AA------AAAATGAC--------AAGAATATGTACTATCATTCAAAACAAGGTAAGCATAAATAACATCATACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8712947 320 +  13128814 GGCATTGAGGTTT----TTCT------------------------------TTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGATGAACATAAGTGAGAAGAAAGAACAAATGATAACCCTGAGCTTCCTGTCATGAACCATTTGATGAAGTTACTGGCAAATTAAAGAAGAGCAAGAGAAAAA---------------------GTACC--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTTATCACTGAAGGTAAGAATCCACCCTTTACAACATGCTTCAAATTCCATTGTGTGTTATTGAATTTGTTATTTGAGA--AA------AAAATGAC--------AAGAATGTGTACTACCATTCAAAACAAGGTAAGTATAAATAACATCATACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13956424 318 -  14377064 GGCATTGAGTTTT------TT------------------------------TTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGATGAACATAAGTGAGAAGAAAGAACAAATGGTAATCCTCAGGTTCCTGTCACGAACCATTTGGTGAAGTTACTTGCAAATTAAAGGAGAGCAAGAGGAAAA---------------------GTACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTTATCACCGAAGGTAAGAATCTACCCTTTACAGCATGCTTCAAATTCCATTGTGTGTTGTTCAATTTGTTATTTGAGA--AA------AAAATGAC--------AAAAATGTGTACTACCATTCAAAACAAGGTAAGCATAAATAACATCATACA
i cebCap1.NW_016107322v1    I 41 C 0
s aotNan1.NW_018487195v1      9179289 324 -   9889416 GGCATTGAGTTTTTTTTTTTT------------------------------TTTAGTTATTAAAGAAATGGGATCAAAGAAATTTTGTGACCAATTTGATGATGAACATAAGTAAGAAGAAAGAACAAATGATAATCCTCAGGTTCCTGTCACGAACCATTTGGTGAAGTTACTTGCAAATTAAAGGAGAGCAAGAGAAAAA---------------------GCACA--------------------------------------------------------------------------------------------------------------------AAA-ATCTTTTATCACAAAAGGTAAGAATCCACACTTTACAGCATGCTTCAAATTCTATTGTGTGTTGTTGAATTTGTTATTTGAGA--AA------AAAATGAC--------AAGAATGTGTACTACCATTCACAACAAGGTAAGCATAAATAACATCATACA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24898189 443 -  38779656 -------gat---------tt------------------------------tcaagttattaaacaggtggtatcaacaagattc-atgacgaatttgatg-tgggaataaatgtgaagaaaaagctaaagattattcctaggttcctgacatggaccatttgatggagtcacTTATAAAGAATAGGAGAGCAAGAGAAAAAAATCAACAGCTGGTGACACACGCACACcccggaagggtgaggcaagaggatcccttgagctctgggttcaaggccagcttgtgcaacacagcaggatcctcatctctaaaaataaataaaTGGATAACTAGATAAAAGATTGAAA-ATATTTCATCATGGGAAGGAAGGATCTACCCTTTTCACCATGCTTTAAATTTCA-TGCATATTATACAATTTTCTAGTTTAAA--AAA-----ATGGTGAA--------AAGAATATATGCAGAATTTCAAACCATGAGATGAATGCATGACATTATACA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2423094 278 +   3081153 ggtattggag---------tt------------------------------tttatttattaaagagatgagatcaaaatgatttggagatcaatttgatgcttggagtaa--agaaagaaagaactgaaaatgatccctatattcctgccatggatcatttggtggagtcactgataaagaaagggaaaataagagag------------------------gtaca--------------------------------------------------------------------------------------------------------------------AAATGTCGTTCAT---------------TCT------------ATGCTTCTGACTCTGTAGTGTGTTTTAGAGTTTGCTAGACCAGG--AAAAA---AAGATGAA--------AGTAAGGTATGCAAAATTTCAAAATATGATTAG------TGA---CATACA
i dasNov3.JH578070          C 0 I 503
e micMur3.chr31              23728239 573 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1052703.000000
s hg38.chr21_GL383579v2_alt    138805 116 +    201197 TGTTTATAG-AATTAAATTTCAACATATTTTCTGATACAAG--CAATATTCTTCATTAGTGAGTTTTATGGTGTTACAGAATAAAAATTATAGAGTATATCT----ATAATTACCAAGCATGG
s panTro5.chr21               8757555 116 +  33445071 TGTTTATAG-AATTAAATTTCAACATATTTTCTGATACAAG--CAATATTCTTAATTAGTGAGTTTTATGGTGTTACAGAATAAAAATTATAGAGTATGTCT----ATAATTACCAAGCATGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22296662 116 +  46275980 TGTTTATAG-AATTAAATTTCAACATATTTTCTGATACAAG--CAATATTCTTAATTAGTGAGTTTTATGGTGTTACAGAATAAAAATTATAGAGTATGTCT----ATAATTACCAAGCATGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8279290 116 -  13858734 TGTTTATAG-AATTAAATTTCAACATATTTTCTGATACAAA--CAATATTCTTAATTAGTGAGTTTTATAGTGTTACAGAATAAAAATTATAGAGTATATCT----ATAATTACCAAGCATGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9303636 116 +  32716333 TGTTTATAG-AATTAAATTTCAACATATTTTCTGATACAAA--CAATATTCTTAATTAGTGAGTTTTATAGTGTTACAGAATAAAAATTATAGAGTATATCT----ATAATTACCAAGCATGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160716984 106 - 185818997 TGTTTATAG-AACTAAATTTCAACATATTTTCTGATACAAATTTAATATTC----TTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----GTAATTACCAAGCATGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167351661 106 - 192294377 TGTTTATAG-AACTAAATTTCAACATATTTTCTGATACAAATTTAATATTC----TTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----GTAATTACCAAGCATGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4987701 106 -  30496662 TGTTTATAG-AACTAAATTTCAACATATTTTCTGATACAAATTTAATATTC----TTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----GTAATTACCAAGCATGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13500286 106 +  21915920 TGTTTATAG-AACTAAATTTCAACATATTTTCTGATACAAATTTAATATTC----TTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----ATAATTACCAAGCATGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20000991 106 -  90373283 TGTTTATAG-AACTAAATTTCAACATATTTTCTGATACAAATTTAATATTC----TTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----ATAATTACCAAGCATGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3508785 106 +   7543664 TGTTTATAG-AACTAAATTTCAACATATTTTCTGATACAAATTTAATATTC----TTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----ATAATTACCAAGCATGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5276741 110 -  13750039 TGTTTATAG-AACTAAATTTCAACACATTTTCTGATACAAATTTATTATTCTTAATTAGTGAGTTTTAT--------AGAATAAAAATTATAGAATATATCT----ATAATTACCAAGCATGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26533297 112 +  50472720 TGTTTATAG------AATTTCAACATATTTTCTGATAAAAACTTGATATTATGTATTAGTGAGTTTTAGAGTGTTACAGAATAAAAATTATGGAATATATCT----ATAATTA-CAAGCACTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8713267 118 +  13128814 TGTTTATAG-AATTAAATTTCAACGTGTTTTTGGATAAAAACTTGATATTATGTATTAGTGAGTTTTAGAGTGTTATAGGATAAAAATTATGGAATATATCT----ATAATTACCAAGCACTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13956742 118 -  14377064 TGTTTATAG-AATTGAATTTCAACATATTTTCTGATAAAAACTTGATATTATATATTAGTGAGTTTTAGAGTGTTACAGAATAAAAGTTACGGAATATATCT----ATAATTACTAAGCACTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9179613 118 -   9889416 TGTTTATAG-AATTAAATTTCAACATATTTTCTGATAAAAACTTGATATTATGTATTAGTGAGTTTTAGAGTGTTTCAGAATAAAAATTATGGAATATATCT----CTAATTACCAAGCACTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24898632 113 -  38779656 CATTAGCCG--ATTAAATTTTGAAATATTTTGTTACACACACTTGATATTGTTAATTAGCGAGTTTTGTACCT----AGAATTGAAATTATGGAACATTTCA----AAAATTATCAAGTAAGA
i otoGar3.GL873528          C 0 I 4
s dasNov3.JH578070            2423875 122 +   3081153 TGCTTGCAGCAATTAAATTTCAAAATATTTTTT-ACAGAAACTTCAAATTAGTAATTGATGAGGTTTGGAATTTGCTTAATTCAAAATGATAAAGCATGTCTAAAAATAACTACCAGAAATGA
i dasNov3.JH578070          I 503 C 0
e micMur3.chr31              23728239 573 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=11008560.000000
s hg38.chr21_GL383579v2_alt    138921 858 +    201197  
s panTro5.chr21               8757671 858 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22296778 858 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8279406 858 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9303752 855 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160717090 848 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167351767 850 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4987807 850 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13500392 851 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20001097 851 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3508891 850 +   7543664  
i manLeu1.NW_012103476v1    C 0 M 1760
s colAng1.NW_012120598v1      5276851 851 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26533409 857 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8713385 853 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13956860 881 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9179731 857 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23728812 846 +  47401472  
i micMur3.chr31             I 573 C 0
s otoGar3.GL873528           24898749 865 -  38779656  
i otoGar3.GL873528          I 4 C 0
s dasNov3.JH578070            2423997 877 +   3081153  
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=1034705.000000
s hg38.chr21_GL383579v2_alt    139779 97 +    201197 GTAGAAAGTAGTATGTCACTCCTTCATTACCGTTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATAGAGTCATTTCAGCCCAAATGAAG
s panTro5.chr21               8758529 97 +  33445071 GTAGAAAGTAGTATGTCACTCCTTCATTACGGTTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATAGAGTCATTTAAGCCCAAATGAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22297636 97 +  46275980 GTAGAAAGTAGTATGTCACTCCTTCATTACGGTTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATAGAGTCATTTAAGCCCAAATGAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280264 97 -  13858734 ATAGAAAGTCGTATGTCACTCCTTCATTACCGTTAAATGATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATAGAGTCATTTAAGCCCAAATGAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9304607 97 +  32716333 ATAGAAAGTAGTATGTCACTTCTTCATTGCCATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATAGAGTCATTTAAGCCCAAATGAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160717938 97 - 185818997 ATACAAAGTCGTATGTCACTCCTTCATTACCATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGCTCAAATGAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167352617 97 - 192294377 ATACAAAGTCGTATGTCACTCCTTCATTACCATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGCTCAAATGAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4988657 97 -  30496662 ATACAAAGTAGTATGTCACTCCTTCATTACCATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGCTCAAATGAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501243 97 +  21915920 ATACAAAGTAGTATGTCACTCCTTCATTACCATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAGGCTCAAATGAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20001948 97 -  90373283 ATACAAAGTAGTATGTCACTCCTTCATTACTATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGCTCAAATGAAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5277702 97 -  13750039 ATACAAAGTAGTATGTCACTCCTTCATTACCATTAAATAATGTGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGCTCAAATGAAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26534266 97 +  50472720 GTATAAAGTAGTATGTCACTCCTGCATTATCATGAAATAATATGTT-TTTATAACTTGCCAATATGGATTTT-ATACACTCATTTAAGGCCAAATTAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8714238 95 +  13128814 ATAGAAAGTA--ATGTCACTCCTGCATTATCATGAAATAATGCGTT-TTTAAAACTTGCCAATATGGATTTT-ATACAGTCATGTAAGGCCAAATTAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13957741 97 -  14377064 ATAGAAAGTAGTATGTCACTCCTGCATTATCATGAAATAATGCGTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGGCCAAATTAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9180588 95 -   9889416 ATAGAAAGCAGTATGCCACTCCTGCATTATCATGAAATAAT--GTT-TTTATAACTTGCCAATATGGATTTT-ATACAGTCATTTAAGGCCAAATTAAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23729658 98 +  47401472 ATAGAAAATAGTATGTCACTTGTTCATTTCCATTAAACAAGGTGTTTCTTATAACTTGCTAATATGAATTTT-ACAAGGTAATTTAAGCCCAAATAAAG
i micMur3.chr31             C 0 I 137
s otoGar3.GL873528           24899614 99 -  38779656 ATAGAGAATAGTATGTCACTTGCTCATTTCCATTAAATAAGGTGTTATTTATACCTTGCTAATATGGATTTTAACAAGGTAATTTAAGCCCAGAGACAA
i otoGar3.GL873528          C 0 I 5
s dasNov3.JH578070            2424874 98 +   3081153 ATAAAAAACAGTGTGCCATTGAATCATTTCCATTAAATAAGGCATTGCTTTTAACTTGCCTATGTGGATATA-ATATGATTACTTAAACCCAAATAAAT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=44726.000000
s hg38.chr21_GL383579v2_alt    139876 5 +    201197 ACCT--A
s panTro5.chr21               8758626 5 +  33445071 ACTT--A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22297733 5 +  46275980 ACTT--A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280361 5 -  13858734 ACCT--A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9304704 5 +  32716333 ACCT--A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718035 5 - 185818997 ACCT--A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167352714 5 - 192294377 ACCT--A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4988754 5 -  30496662 ACCT--A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501340 5 +  21915920 ACCT--A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002045 5 -  90373283 ACCT--A
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5277799 5 -  13750039 ACCT--A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26534363 5 +  50472720 ACCT--A
i calJac3.chr21             C 0 I 15
s saiBol1.JH378168            8714333 7 +  13128814 ACCTAAA
i saiBol1.JH378168          C 0 I 15
s cebCap1.NW_016107322v1     13957838 5 -  14377064 ACCT--A
i cebCap1.NW_016107322v1    C 0 I 369
s aotNan1.NW_018487195v1      9180683 5 -   9889416 ACCT--A
i aotNan1.NW_018487195v1    C 0 I 358
s otoGar3.GL873528           24899718 5 -  38779656 ACTT--T
i otoGar3.GL873528          I 5 I 11
s dasNov3.JH578070            2424972 5 +   3081153 ACTC--A
i dasNov3.JH578070          C 0 I 3
e micMur3.chr31              23729756 137 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=173718.000000
s hg38.chr21_GL383579v2_alt    139881 24 +    201197 TTCAAACTATATTTAGATTCTTAA
s panTro5.chr21               8758631 24 +  33445071 TTCAGACTATATTTAGATTCTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22297738 24 +  46275980 TTCAGACTATATTTAGATTCTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280366 24 -  13858734 TTCAGACTATATTTAGATTCTTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9304709 24 +  32716333 TTCAGACTATATTTAGATTCTTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718040 24 - 185818997 TTCAGACCATACTTAGATTCTTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167352719 24 - 192294377 TTCAGACTATACTTAGATTCTTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4988759 24 -  30496662 TTCAGACTATACTTAGATTCTTAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501345 24 +  21915920 TTCAGACTAGACTTAGATTCTTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002050 24 -  90373283 TTCAGACTATACTTAGATTCTTAA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5277804 24 -  13750039 TTCAGACTATACTTAGATTCTTAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26534383 24 +  50472720 TTTAGACTGTATTTAGATTCTCAA
i calJac3.chr21             I 15 I 322
s saiBol1.JH378168            8714355 24 +  13128814 TTTAGACTGTATTTAGATTCTCAA
i saiBol1.JH378168          I 15 C 0
s otoGar3.GL873528           24899734 24 -  38779656 TTTAGATTAAATTTAGACCCTTAA
i otoGar3.GL873528          I 11 C 0
s dasNov3.JH578070            2424980 24 +   3081153 TTTAAGCTAAGGATTTATGCTAGG
i dasNov3.JH578070          I 3 C 0
e micMur3.chr31              23729756 137 +  47401472 I
e cebCap1.NW_016107322v1     13957843 369 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9180688 358 -   9889416 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=172008.000000
s hg38.chr21_GL383579v2_alt    139905 17 +    201197 CTTAGTATTAATTTTTT
s panTro5.chr21               8758655 17 +  33445071 CTTAGTATTAATTTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22297762 17 +  46275980 CTTAGTATTAATTTTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280390 17 -  13858734 CTTAGTATTAATTTTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9304733 17 +  32716333 CTTAGTATTAATTTTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718064 17 - 185818997 CTTAGTATTAATTTTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167352743 17 - 192294377 CTTAGTATTAATTTTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4988783 17 -  30496662 CTTAGTATTAATTTTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501369 17 +  21915920 CTTAGTATTAATTTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002074 17 -  90373283 CTTAGTATTAATTTTTT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5277828 17 -  13750039 CTTAGTATTAATTTTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26534729 17 +  50472720 cTTAGtattaattttta
i calJac3.chr21             I 322 C 0
s saiBol1.JH378168            8714379 17 +  13128814 CTTAGTATTAACttttt
i saiBol1.JH378168          C 0 I 292
s cebCap1.NW_016107322v1     13958212 17 -  14377064 cTTAGTATTAATTTTTA
i cebCap1.NW_016107322v1    I 369 C 0
s aotNan1.NW_018487195v1      9181046 17 -   9889416 cTTAGTATTAATTTTTA
i aotNan1.NW_018487195v1    I 358 C 0
s otoGar3.GL873528           24899758 17 -  38779656 TTTAGTATTAGTTTTCC
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2425004 16 +   3081153 TTTAG-ACCATTCTTCC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23729756 137 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=606230.000000
s hg38.chr21_GL383579v2_alt    139922 70 +    201197 ATGAAAAAACATTTTATTAAATAAAACA-ATCTCTAAATA-TTACTTAAAGCTATAAAATGTTTTATACATA
s panTro5.chr21               8758672 70 +  33445071 ATGAAAAAACATTTTATTAAATAAAACA-ATCTCTAAATA-TTACTTAAAGCTATAAAATGTTTTATACATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22297779 69 +  46275980 ATG-AAAAACATTTTATTAAATAAAACA-ATCTCTAAATA-TTACTTAAAGCTATAAAATGTTTTATACATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280407 70 -  13858734 ATGAAAAAACATTTTATTAAATAAAACA-ATCTCTAAATA-TTACTTAAAGCTATAAAATGTTTTATACATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9304750 70 +  32716333 TATTAAAAAAATTTTATTAAATAAAACA-ATCTCTAAATA-TTACTTAAAGCTATAAAATGTTTTATACATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718081 70 - 185818997 ATGAAAAAACATTTTATTAAATAAAACA-ATCTGTAAATA-TTACTTAAAGTTATAAAATGGTTTATACATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167352760 70 - 192294377 ATGAAAAAACATTTTATTAAATAAAACA-ATCTGTAAATA-TTACTTAAAGTTATAAAATGGTTTATACATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4988800 70 -  30496662 ATGAAAAAACATTTTATTAAATAAAACA-ATCTGTAAATA-TTACTTAAAGTTATAAAATGGTTTATACATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501386 70 +  21915920 ATGAAAAAACATTTTATTAAATAAAACA-ATCTGTAAATA-TTACTTAAAGTTATAAAATGGTTTATACATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002091 70 -  90373283 ATGAAAAAACATTTTATTAAATAAAACA-ATCTATAAATA-TTACTTAAAGTTATAAAATGGTTTATACATA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5277845 70 -  13750039 ATGAAAAAACATTTTATTGAATAAAACA-ATCTGTAAATA-TTACTTAAAGTTATAAAATGGTTTATACATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26534746 70 +  50472720 atgaagatacattttattaaataaaaagaatctat-aaaa-ttacttaaaattataaaatGCTTTAAATACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8714688 69 +  13128814 atgaaaatgcattttattaaataaaaCG-ATCTAT-AAAA-TTACTTAAAATTACAAAATGCTCTATATACA
i saiBol1.JH378168          I 292 C 0
s cebCap1.NW_016107322v1     13958229 69 -  14377064 ATGAATATACATTTTATTAATTAAAACA-ATGTAT-AAAA-TTACTTAAAATTATAAAATGCTTTATATACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181063 70 -   9889416 ATGAAAATACATTTTATTAAATAAAACA-ATCTATAAAAA-TTACTTAAAATTATAAAATGCTTTATATACA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24899775 70 -  38779656 AGAAACATAAATTTTATTAAATAAGACA-AACTATAAAAA-TTACTTAAACTCACAAGTTTAATTGTGGTTG
i otoGar3.GL873528          C 0 I 7
s dasNov3.JH578070            2425020 71 +   3081153 AGACTAAGAAATTCTATTAAATAAGGTA-ATAAAAAAATACTTACTTAAAATTATAAGGTGATATATAAATA
i dasNov3.JH578070          C 0 I 8
e micMur3.chr31              23729756 137 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=2733157.000000
s hg38.chr21_GL383579v2_alt    139992 286 +    201197 TGTTG---------------TTATTATTATCAGCTAGTGCTAGGGAAAAA-CAGAGACCAGA-TTTTTTT--TAAA-TTATCCATTATTCTTTAGCATTGAAATCAAGATTTTTTTATCTTGTGGTTTATCACAGAATACACTATTCTATTTC---------GATTAGTGAAAATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTC-ATCTAGTCCCTTAAAATAAGA-TTTTTAT
s panTro5.chr21               8758742 287 +  33445071 TGTTG---------------TTATTATTATCAGCTAGTGCTAGGGAAAAA-CAGAGACCAGA-TTTTTAA--AAAAATTATCCATTATTCTTTAGCATTGAAATCAAGATTTTTTTATCTTGTGGTTTATCACAGAATACACTATTCTATTTC---------GATTAGTGAAAAATTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTC-ATCTAGTCACTTAAAATAAGA-TTTTTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22297848 285 +  46275980 TGTTG---------------TTATTATTATCAGCTAGTGCTAGGGAAAA---AGAGACCAGA-TTTTTAA--AAAAATTATCCATTATTCTTTAGCATTGAAATCAAGATTTTTTTATCTTGTGGTTTATCACAGAATACACTATTCTATTTC---------GATTAGTGAAAATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTC-ATCTAGTCACTTAAAATAAGA-TTTTTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280477 287 -  13858734 TGTTG---------------TTATTATTATCAGCTAGTGCTAGGGAAAAATCAGAGACCAGA-TTTTTTT--TTTAATTATCCATTATTCTATAGCATTGAAATCAAGATTTTTTTATCTTGTGGTTTTTCACAGAATACACTATTCTATTTC----------ATTAGTGAAAATTTTTATTTTAAATATGTTTATTCATATGGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTC-ATCTAGTCACTTAAAATAAGA-TTTTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9304820 286 +  32716333 TGTTG---------------TTATTATTATCAGCTAGTGCTAGGGAAAAA-CAGAGACCAAA-TTTTTTT--TAAA-TTATCCATTATTCTTTAGCATTGAAATCAAGATATTTTTATCTTGTGGTTTATCACAGAATACACTATTCTATTTC---------GATTAGTGAAAATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATATCTAAATGACTA----AATTTCAAGCAA-TATGATACCATTAACTG---TTAGATTATG-----TTTTACTTTTGGAATTTTTC-ATCTAGTCACTTAAAATAAGA-TTTTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718151 286 - 185818997 TGTTG------------------ATATTATCAGCTAGTGCTAGGGAAAAA-CAGAGGCCAGA-TTTTTTTAAAAAAATTATGTATTATTCTCCAGCATTGAAATCAAGGTTTTTTTGTCTTGTGGTTTATCACACAATACACTATTCTATTTC---------GATTAGTGATCATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTA-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167352830 286 - 192294377 TGTTG------------------ATATTATCAGCTAGTGCTAGGGAAAAA-CAGAGGCCAGA-TTTTTTTAAAAAAATTATCTATTATTCTCCAGCATTGAAATCAAGGTTTTTTTATCTTGTGGTTTATCACACAATACACTATTCTATTTC---------GATTAGTGATCATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTA-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4988870 287 -  30496662 TGTTG------------------ATATTATCAGCTAGTGCTAGGGAAAAA-CAGAGGCCAGATTTTTTTTAAAAAAATTATCTATTATTCTCCAGCATTGAAATCAAGGTTTTTTTATCTTGTGGTTTATCACACAATACACTATTCTATTTC---------GATTAGTGATCATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTA-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501456 285 +  21915920 TGTTG------------------ATATTATCAGCTAGTGCTAGGGAAAAA-CAGAGGCCAGA-TTTTTTT-AAAAAATTATCTATTATTCTCCAGCATTGAAATCAAGGTTTTTTTATCTTGGGGTTTATCACACAATACACTATTCTATTTC---------GATTAGTGATCATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTA-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002161 286 -  90373283 TGTTG------------------ATATTATCAGCTAGTGCTAGGGAAAAA-CAGAGGCCAGA-TTTTTTTTTAAAAATTATCTATTATTCTCCAGCATTGAAATCAAGGTTTTTTAATCTTGCGGTTTATCATACAATACACTATTCTATTTC---------GATTAGTGAACATTTTTATTTGAAATATGTTTATTCGTATAGTTTGGTAGCATACCTAAATGACTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATA-----TTTTCCTTTTGGAATTTTTA-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5277915 284 -  13750039 TGTTG------------------ATATTATCAGCTAGTGCTAGGGAAAAA-CAGAGGCCAAA-TTTTTTT-TTTAAATTATGTATTATTCTTCAGCATTGAAATCAAGGTTTTTT-ATCTTGTGGTTTATCACACAATACACTATTCTATTTC---------GATTAGTGAACATTTTTATTTTAAATATGTTTATTCATATAGTTTGGTAGCATACCTAAATGATTA----AATTTCAAGCAA-TATTATACCATTAACTG---TTAGATTATG-----TTTTCCTTTTGGAATTTTTA-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26534816 281 +  50472720 TGTTG---------------------CTATCAGCTAGTGATAGGGAAAAA-CAGAGGCCAAA-TATTAAT-TTAAAAGTATCCATTATTTTTTAGCATTTAAATCAATGTTTTTT-ATCTTGTGGCTTATCACAGAATACACTATTCTATTTC---------GATTAGTGAAATTTTGTATTTTAAATATGATTATTTGTATAGATTGGTAGCATATATAAATGACTA----AATTTCAAGCAA-GATTATGCCATTAACTG---TTAGATTATG-----TTTTACTTCTGGATTTTTTT-ATCTGCTCACTTGAAATAAGA-TTGTTAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8714757 283 +  13128814 TGTTG---------------------TTATCAGCTAGTGATAGGGAAAAA-CAAAGGCCAAA-TATTAAT-TAAAAAGTATCCATTATTTTTTAGCATTGAAATCAATGTTTTTT-ATTTTGTGCCTTATCACAGAATACACTATTCTATTTC---------GATTAGTGAAATTTTGTATTTTAAATATGAATATTTGTATAGATTGGTAGCACATATAAATGACTA----AATTTCAAGTAA-AATTATGCCATTAACTC---TTAGATTATG-----TTTTACTTTTAGATTTTTTTCATCTGCTCATTTAAAATAAGATTTTTTAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958298 280 -  14377064 TGTTG---------------------TTATCAGCTAGTGATAGGGGAAAA-CAGGGGCCAAA-TATTAAT-TAAAAAGTATCCATTATTTTTTAGCATTGAAATCAATGTTTTTT-ATCTTGTGGCTTATCACAGAATACACTATTCTATTTC---------AATTAGTGAAATTTT-TATTTTAAATATGATTATTTGTATAGATTGGTAGCATATGTAAATGACTA----AATTTCAAGTAA-GATTATGCCATTAATTG---TTAGATTATG-----TTTTACTTCTAGGTTTTTTC-ATCTGCTCACTTAAAATAAGA-TTTTTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181133 281 -   9889416 TGTTG---------------------TTGTCAGGTAGTGATAGGGAAAAA-CAGAGGCCAAA-TATTAAT-TAAAAAGTATCCATTATTTTTTAGCATTGAAATCAATGTTTTTT-ATCTTGTGTCTTATCACATAATACACTATTCTATTTC---------GATTAGTGAAATTTTGTATTTTAAATATGATTATTTGTATAGATTGGTAGCATATATAAATGACTA----AATTTCAAGCAA-GATTATGCCATTAACTG---TTAGATTATG-----TTTTACTTCTGGATTTTTTC-ATCTGCTCACTTAAAATAAGA-CTTTTAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23729893 296 +  47401472 TGTTG---------------TTATTATTATCAGCCAGTGCTGTAGAAAAA-CAGAGACCAAA-TATGAAA-CAAAATGGATCCACTATTCTTTAGCTTTTGAATCAATGTTGTTT-ATCTTGTGGTTTGTCATAGAATACATTATTGTATTTAGTCTATTGTCATTAGTAAAAACTTTTATTTTAAATATGTTTA----TATAATTTGGTAGCATACATAAATGTCTATTTTAATTTCAGGCTA-CACTATGCCATTAACTA---TTAGATTATG-----TCTTATTTCTGGCTTTTTTC-ATCTGGTCACTTAAAATAAGA-TTTTTAT
i micMur3.chr31             I 137 I 748
s otoGar3.GL873528           24899852 284 -  38779656 TATTA---------------TCATGATTATCAGCTAATGGTGTAGCAAAG-T--AGGTCAAA-CGTAAAA-CAAAATGTATCCACTATTCTTTA-TATTTGAATCAATGTTGTTC-ATCTTGTGGTTTACCATCGAATAAACTATTCtattta---------tattagtaaaaa-ttttattttaaatatgttta----tataatttGGTGAGATACATAAACCTCCATTTTAATTTCAGGTGACCATTATGCCATTAACTG---TTAGATAATG-----TCTTATTTATTGCTTTTTTC-ATCTGGACACTTCTAATAAGA-TTTTAAT
i otoGar3.GL873528          I 7 I 2
s dasNov3.JH578070            2425099 308 +   3081153 TGCTatcatcatcatgatcatcatcatcaccaccaAGTACTATAGAATAA-CAGAAGCCATG-AATATTG--GAAATATATGCATTATTCCTTAGCCTTTGAATGA--GTTGTTT-ACCTTGTGACTTATCCCAGGATAAACTATTCTATTTC---------CATTAGTAAAATCTTTTATTTTAAACATGCTTATTTTCATAAATGTGTAGCATACATGAGTTGCTCCTTTAATTTCAGGCAA-TATGAT-CCATTAGCTGACCTTGTCTTATAACGGCATTTTTTTTTTTTTTTTACA-ATCTGTCCTCTTAAAATAAGA-TTTTT--
i dasNov3.JH578070          I 8 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=1077692.000000
s hg38.chr21_GL383579v2_alt    140278 116 +    201197 GGGGGAAGGGAGAA----ACGTT--ATGTACGTAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCACTTCTGA-ATTTTGAATGTTTTACTGGTTATAAATA-CTATCCATGTTGTCATT
s panTro5.chr21               8759029 116 +  33445071 GGGGGAAGGGAGAA----ACGTT--ATGTACGTAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCACTTCTGA-ATTTTGAATGTTTTACTGGTTATAAATA-CTATCCATGTTGTCGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298133 116 +  46275980 GGGGGAAGGGAGAA----ACGTT--ATGTACGTAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCACTTCTGA-ATTTTGAATGTTTTACTGGTTATAAATA-CTATCCATGTTGTCGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280764 116 -  13858734 GGGGGAAGGGAGAA----ACGTT--ATGTACATAAAGCTGAAATATTTACAGTACACGTTTCAAAAGTCACTTCTGA-ATTTTGAATGTTTTACTGGTTATAAATA-CTATCCATGTTGTCGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305106 116 +  32716333 GGGGGAAAGGAGAA----ACGTT--ATGGACATAAAGCTGAAATATTTATAGTACACATTTCAAAAGTCAATTCTGA-ATTTTGAATGTTTTACTGGTTATAAATA-CTATCCATGTTGTCGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718437 116 - 185818997 GGGGGAAAGGAGAA----TGGTT--ATATACATAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCAATTCTGA-ATTTAGAATGTTTTACTGGTTATAAATA-CTATCCAtgttgttgtt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353116 116 - 192294377 GGGGGAAAGGAGAA----TGGTT--ATGTACATAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCAATTCTGA-ATTTAGAATGTTTTACTGGTTATAAATA-CTATCCAtgttgttgtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989157 116 -  30496662 GGGGGAAAGGAGAA----TGGTT--ATGTACATAAAGCTGAATTATTTACAGTACACATTTCAAAAGTCAATTCTGA-ATTTAGAATGTTTTACTGGTTATAAATA-CTATCCAtgttgttgtt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501741 116 +  21915920 GGGGGAAAGGAGAA----TGGTT--ATGTACATAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCAATTCTGA-ATTTAGAATGTTTTACTGGTTATAAATA-CTATCCAtgttgttgtt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002447 113 -  90373283 GGGGGAAAGGAGAA----TGGTT--ATGTACATAAAGCTGAAATATTTACAGTACACATTTCAAAAGTCAGTTCTGA-ATTTAGAATGTTTTACTGGTTATAAATA-CTATCCA---TGTTGTT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278199 116 -  13750039 GGGGGAAAGATGAA----TGGTT--ATGTACATAAAGCTGAAATATTTACAGTACACATTTCAAAAGTGAATTCTGA-ATTTAGAACGTTTTACTGGTTATAAATA-CTATCCAtgttgttgtt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535097 118 +  50472720 -GGGGAAAGGAGAATGGTTGGTT--ATATACATAAAGCTCAAATATTTGCAGTACACATTTCAAAAGTCAGTTCCGA-ATCTAGAATATCTTACTGGTTATAAATA-CCATCCATGTTGTC-TT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715040 115 +  13128814 -GGGGAAAGGAGAA----TGGTT--ATGTACATAAAGCTCAAATATTTGCAGTACACATTTCAAAAGTGAGTTCTGA-GTCTAGAGTATTTTACTGGTTATAAATA-CCATCCATGTTGTCATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958578 114 -  14377064 -GGGGGAAGGAGAA----TGGTT--ATGTA-ATAAAGCTCAAATATTTGCAGTACACATTTCTAAAGTCAGTTCTGA-ATCTAGAGTATTTTGCTGGTTATAAATA-CCATCCATGTTGTCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181414 115 -   9889416 -GGGGAAACGAGAA----TGGTT--ATGTACATAAAGCTCAAATATTTGCAGTACACATTTCAAAAGTCAGTTCTGA-ATCCAGAGTATTTTACTGGTTATAAATA-CCATCCGTGTTGTCATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900138 112 -  38779656 GGTGGAA-----AA----TGGTT--ATGTACCTAAAGCTGTAATATTTGGAATGCACATTTTAAAAATTAATTTTGT-ATACAGAATGCTTTTCTGGTTAGGAACATCCATTCATTTTGTTTTT
i otoGar3.GL873528          I 2 C 0
s dasNov3.JH578070            2425407 109 +   3081153 -----------GAA----TATTTCAAAGTTGATAAGGCTTAAATATTTAGAATATACATTTCAAAAATTAATACTGCTATCTATATTATTTAGCTGGCTAGGAATAGCCATTCACTTTGTTGTT
i dasNov3.JH578070          C 0 I 489
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=230031.000000
s hg38.chr21_GL383579v2_alt    140394 30 +    201197 TTTGTTGT-------TATTTatataaaattatgagca
s panTro5.chr21               8759145 30 +  33445071 TTTGTTGT-------TATTTATATAAAATTATGAGCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298249 30 +  46275980 TTTGTTGT-------TATTTATATAAAATTATGAGCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280880 30 -  13858734 TTTGTTGT-------TATTTATATAAAATTATGAGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305222 30 +  32716333 TTTGTTGT-------TATATATATAAAATTATGAGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718553 30 - 185818997 tttgttgt-------tACATATATATAATTATGAGCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353232 30 - 192294377 tttgttgt-------tACATATATATAATTATGAGCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989273 30 -  30496662 tttgttgt-------tACATATATATAATTATGAGCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501857 30 +  21915920 tttgttgt-------tACATATATATAATTATGAGCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002560 30 -  90373283 TTTGTTGT-------TACATATATATAATTATGAGCA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278315 30 -  13750039 tttgttgt-------tATATATATATAATTATGAGCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535215 27 +  50472720 T---TTTT-------GGTATATATAAAATTATTAGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715155 27 +  13128814 T---TTGT-------TGTATATATAAAATTATTAGCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958692 30 -  14377064 TTTGTTGT-------TGTATATATAAAATTATTAGCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181529 30 -   9889416 TTTGTTGT-------TGTATATATAAAATTATTAGCA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900250 37 -  38779656 GTTGATGTTTAAAAATTAATGTATAAAAATATGAGCA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e dasNov3.JH578070            2425516 489 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=1879073.000000
s hg38.chr21_GL383579v2_alt    140424 207 +    201197 ataatctagaatataatataatatagagttaggaaaatataatCAAACAACTTGAT-------ATGCAGACATCTGGAAATCAGTTAGACTCTT---CTAAATAAATCTTATGATCTTGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAAATACTGGAGCACAGAATAAAGATGTCTCTGCATGAATC
s panTro5.chr21               8759175 207 +  33445071 GTAATCtagaatataatataatatagagttaggaaaatataatCAAACAACTTGAT-------ATGCAGACATCTGGAAATCAGTTAGACTCTT---CTAAATAAATCTTATAATCTTGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAAATACTGGAGCACAGAATAAAGATGTCTCTGCCTGAATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298279 207 +  46275980 GTAATCtagaatataatataatatagagttaggaaaatataatCAAACAACTTGAT-------ATGCAGACATCTGGAAATCAGTTAGACTCTT---CTAAATAAATCTTATAATCTTGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAAATACTGGAGCACAGAATAAAGATGTCTCTGCCTGAATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8280910 207 -  13858734 GTAATCTAGAATATAATATAATGTAGAGTTAGGAAAATATAATCAAACAACTTGAT-------ATGCAGACATCTGGAAATCAGTTAGACTCTT---CTAAATAAATCTTATAATCTTGTGGTAGAGAAGAAGTAATTTCACCTCGTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAAATACTGGAGCACAGAATAAAGATGTCTCTGCATGAATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305252 206 +  32716333 GTAATCTAGAATATAATATAATGTAGAGTTAGGAAAATATAAGCAAACAACTTGAT-------ATGCAGACATCTGGAAATC----AGACTCTTCTACTAAACAAATCTTATAATCTTGTGGTAGAGAAGAACTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAGATACTGGAGCACAGGATAAAGATGTATCTGCATGAATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718583 209 - 185818997 GTAATCTAGAATATAATATAATGCAGAGTTAGGAAAATATGATGAAACAACTTGAT-------ATGCAGACAGCTGGAAATTAGTTACACTCTTCTACTAAGTAAGTCTTATAATC-TGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAATTACTGAAGCACTGAATAAAGATGCCCCTGCATGAATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353262 209 - 192294377 GTAATCTAGAATATAATATAATGCAGAGTTAGGAAAATATGATGAAACAACTTGAT-------ATGCAGACAGCTGGAAATTAGTTACACTCTTCTACTAAGTAAGTCTTATAATC-TGTGGTAGAGTAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAATTACTGAAGCACTGAATAAAGATGTCCCTGCATGAATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989303 207 -  30496662 GTAATCTAGAATATAATATAATGCAGAGTTAGGAAAATATGATGAAACAACTTGAT-------ATGCAGACAGCTGGAAATTAGTTACACTCTTCTACTAAGTAAGTCTTATAATC-TGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAG-TTCTGCTCTTCAA-TACTGAAGCACTGAATAAAGATGTCCCTGCCTGAATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13501887 209 +  21915920 GTAATCTAGAATATAATATAATGTAGAGTTAGGAAAATATGATGAAACAACTTGAT-------ATGCAGACAGCTGGAAATTAGTTACACTCTTCTACTAAGTAAGTCTTATAATC-TGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAATTACTGAAGCACTGAATAAAGATGTCCCTGCATGAATC
i cerAty1.NW_012002954v1    C 0 I 313
s chlSab2.chr2               20002590 209 -  90373283 GTAATCCAAAATATAATATAATGTAGAGTTAGGAAAATATGATGAAACAACTTGAT-------ATGCAGACAGCTGGAAATTAGTTACACTCTTCTACTAAATAAGTCTTATAATC-TGTGGTAGAGAAGAAGTAATTTCACCTCCTTAGAATGCTAGTTCTTAGTTTCTGCTCTTCAATTACTGAAGCACTGAATAAAGATGTCCCTGCATGAATC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278345 209 -  13750039 GTAATCTAGAATATAATATCATGTGGAGTTAGGAAAATATGATGAAACAACTTGAT-------ATGCAGATATCTAGAAATCAGTTACACTCTTCTACTAAATAAGTCTTATAATC-TGTGGTAGAGAAGAAGTAATTTCATCTCCTTAGAATGCTAGTTTTTAGTTTCTGCTCTTCAGTTACTGAAGCACTGAATAAAGATGTCCCTGCATGAATC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535242 191 +  50472720 ATAATCTAGAACACAATACAATGTAGAGTTAGGAAAATGTAATCCAACAACTTGAT-------ATGCAGACATCTGGAA----GTTAGACTCTTCTACTAAATAAATCTTATAATCTTGTGGTAGAGAAGAAATAATTTCACCTCCTTATAATGCTAGTTCATAGTTTCTGCTATTCAAATACTGGAGC---------------TCCTGCATGAATC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715182 206 +  13128814 ATAATCTAGAACAAAATGCAATGTAGAATTAAGAAAATATAATCCAACAACTTGCT-------ATGCAGACATCTGGAA----GTTAGACTCTTCTACTAAATAAATCTTATAATCTTGTGGTAGAGAAGAAATAATTTCACCTCCTTATAATGCTAGTTCATAGTTTCTGCTATTCAAATACTGGAGCACTGGATAAAGATGTTCCTGCATGAATC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958722 206 -  14377064 ATAATCTAGAACAAAATACAATGCAGAGTTAGGAAAATATAATCCAACAACTTGAT-------ATGCAGACATCTGGAA----GTTAGACTCTTCTACTAAATAAATCTTATAATCTTGTGGTAGAGAAGAAGTCATTTCACCTCCTTATAATGCTAGTTCATAGTTTCTGCCATTCAAATACTGGAGCACTGGATAAAGATGCTCCTGCAAGAATC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181559 206 -   9889416 ATAATCTAGAACAAAATACAATGTAGAGTTAGGAAAATATAATCCAACAACTTGAT-------ATGCAGACATCTGGAA----GTTAGACTCTTCTACTAAATACATCTTATAATCTTGTGGTAGAGAAGAAGTAGTTTCACCTCCTTATAATGCTGGTTCATAGTTTCTGCTGTTCAAATACTGGAGCACTGGATAAAGACGCTCCTGCATGAATC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900287 217 -  38779656 ATGATGTAGAATGAAATATAGTGCACATTTTAGAAAATGTAATACAATAACTTGATATGGCACATGCAGATATTTAGAAGTCATTTTGAATTAACTACTAAATAATTCATATAATTTTATGATGTAAAAGGAGTAATTTTACCTCTTTGCAATTGTAGTTCTTAGTTTCTGCTCTTTGGATATTGAAACATCAAATAAAGTTGCTCCTATATGGATC
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2426005 210 +   3081153 ATGAACAAGAATGAAATAAAGTGTAGAACTGTG-GAACATAATGTAACAACCTGATGTAGTA-ATACAGATATCTGAAA-TACTTTTGACTCTTCTACTAAATACATTTTATAATTACTTGTTGAAAAACAAGTAATTTTATATCTCCATAAT-CAGATTCTTAGGTTCTACTTTCCAGAAACTTTAGCCCTGAAAAAAGATA---CTCTATGGaat
i dasNov3.JH578070          I 489 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=23469.000000
s hg38.chr21_GL383579v2_alt    140631 4 +    201197 AAGA-
s panTro5.chr21               8759382 4 +  33445071 AAGA-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298486 4 +  46275980 AAGA-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281117 4 -  13858734 AAGA-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305458 4 +  32716333 AAGA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718792 4 - 185818997 AATA-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353471 4 - 192294377 AATA-
i macFas5.chr3              C 0 I 314
s macNem1.NW_012015021v1      4989510 4 -  30496662 AATA-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502409 4 +  21915920 aaga-
i cerAty1.NW_012002954v1    I 313 C 0
s chlSab2.chr2               20002799 4 -  90373283 AATA-
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278554 4 -  13750039 AAGA-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535433 4 +  50472720 AATA-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715388 4 +  13128814 GACA-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958928 4 -  14377064 AATA-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181765 4 -   9889416 AATA-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900504 4 -  38779656 AAGA-
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2426215 4 +   3081153 -agaa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=37367.000000
s hg38.chr21_GL383579v2_alt    140635 6 +    201197 ATTATT
s panTro5.chr21               8759386 6 +  33445071 ATTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298490 6 +  46275980 ATTATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281121 6 -  13858734 ATTATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305462 6 +  32716333 ATTATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160718796 6 - 185818997 ATTATT
i rheMac8.chr3              C 0 I 317
s macFas5.chr3              167353789 6 - 192294377 attatt
i macFas5.chr3              I 314 C 0
s macNem1.NW_012015021v1      4989514 4 -  30496662 --TATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502413 6 +  21915920 attatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20002803 6 -  90373283 AGtgtt
i chlSab2.chr2              C 0 I 315
s colAng1.NW_012120598v1      5278558 6 -  13750039 ATTATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535437 6 +  50472720 ATTACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715392 6 +  13128814 ATTACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958932 6 -  14377064 ATTACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181769 6 -   9889416 ATTACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900508 1 -  38779656 ---A--
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2426219 6 +   3081153 attgac
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=44696.000000
s hg38.chr21_GL383579v2_alt    140641 5 +    201197 ttgtt
s panTro5.chr21               8759392 5 +  33445071 ttgtt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298496 2 +  46275980 ---tt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281127 2 -  13858734 ---tt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305468 5 +  32716333 ttgtt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719119 5 - 185818997 ttgtt
i rheMac8.chr3              I 317 C 0
s macFas5.chr3              167353795 5 - 192294377 ttgtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989518 5 -  30496662 TTGTT
i macNem1.NW_012015021v1    C 0 I 312
s cerAty1.NW_012002954v1     13502419 5 +  21915920 ttgtt
i cerAty1.NW_012002954v1    C 0 I 3
s chlSab2.chr2               20003124 5 -  90373283 ttgtt
i chlSab2.chr2              I 315 C 0
s colAng1.NW_012120598v1      5278564 5 -  13750039 TTGTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535443 5 +  50472720 TTGTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715398 5 +  13128814 TTGTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958938 5 -  14377064 TTGTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181775 5 -   9889416 TTGTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900509 5 -  38779656 CTGTT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2426225 5 +   3081153 ttaat
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=10000.000000
s hg38.chr21_GL383579v2_alt    140646 1 +    201197 g
s panTro5.chr21               8759397 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298498 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281129 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305473 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719124 1 - 185818997 g
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353800 1 - 192294377 g
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989835 1 -  30496662 g
i macNem1.NW_012015021v1    I 312 C 0
s cerAty1.NW_012002954v1     13502427 1 +  21915920 c
i cerAty1.NW_012002954v1    I 3 C 0
s chlSab2.chr2               20003129 1 -  90373283 g
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278569 1 -  13750039 G
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535448 1 +  50472720 G
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715403 1 +  13128814 G
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958943 1 -  14377064 G
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181780 1 -   9889416 G
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900514 1 -  38779656 G
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2426230 1 +   3081153 g
i dasNov3.JH578070          C 0 I 386
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=25668.000000
s hg38.chr21_GL383579v2_alt    140647 3 +    201197 ttg
s panTro5.chr21               8759398 3 +  33445071 ttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298499 3 +  46275980 ttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281130 3 -  13858734 ttg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305474 3 +  32716333 ttg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719125 3 - 185818997 ttg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353801 3 - 192294377 ttg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989836 3 -  30496662 ttg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502428 3 +  21915920 ttg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003130 3 -  90373283 ttg
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278570 3 -  13750039 TTg
i colAng1.NW_012120598v1    C 0 I 323
s calJac3.chr21              26535449 3 +  50472720 TTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715404 3 +  13128814 TTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958944 3 -  14377064 TTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181781 3 -   9889416 CTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900515 3 -  38779656 TTG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e dasNov3.JH578070            2426231 386 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=164841.000000
s hg38.chr21_GL383579v2_alt    140650 30 +    201197 ttgttgcttgttgttTGTCTTTTAATCTAA
s panTro5.chr21               8759401 30 +  33445071 ttgttgcttgttgttTGTCTTTTAATCTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298502 30 +  46275980 ttgttgcttgttgttTGTCTTTTAATCTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281133 30 -  13858734 ttgttgcttgttgttTGTCTTTTAATCTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305477 30 +  32716333 ttgttgcttgttgttTGTCTTTTAATCTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719128 29 - 185818997 ttgttgcttgttgtttgttT-ATAATCTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353804 29 - 192294377 ttgttgcttgttgtttgttT-ATAATCTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989839 29 -  30496662 ttgttgcttg-tgtttgttTAATAATCTAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502431 29 +  21915920 ttgttgcttgttgtttgttT-ATAATCTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003133 29 -  90373283 ttgttgcttgttgtttgttT-ATAATCTAA
i chlSab2.chr2              C 0 C 0
s calJac3.chr21              26535452 29 +  50472720 TTGTTGCTTGTT-TTTGTTCTTTAATCTAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715407 29 +  13128814 TTGTTGCTTGTT-TTTGTTTTTTAATCTAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958947 28 -  14377064 CTGTTGCTTGTT-TTTCTTCTTTAATCT-A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181784 29 -   9889416 TTGTTGCTTGTT-TTTGTTTTTTAATCTAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900518 22 -  38779656 TTTCATCTTGGTGTTTTTACTA--------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e dasNov3.JH578070            2426231 386 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e colAng1.NW_012120598v1      5278573 323 -  13750039 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=941831.000000
s hg38.chr21_GL383579v2_alt    140680 114 +    201197 CTTTTTCAAGCAATCATTG-TATTTAGCCGACCACTAAATCTAAAG-CCTACATTTGTGACTTGTGTTTAGAAAGATGATTTGAATAATGATTTTCTAGAAAATAACAAGGTGAG------A
s panTro5.chr21               8759431 114 +  33445071 CTTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAG-CCTACATTTGTGACTTGTGTTTAGAAAGATGATTTGAATAATGATTTTCTAGAAAATAACAAGGTGAG------A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298532 113 +  46275980 CTTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAG-CCTA-ATTTGTGACTTGTGTTTAGAAAGATGATTTGAATAATGATTTTCTAGAAAATAACAAGGTGAG------A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281163 113 -  13858734 CTTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAG-CCTACATTTGTGACTTGTGTTTAGAAAGATGATTTGAATAATGATTTTCTAGAAAATAACAA-GTGAG------A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305507 114 +  32716333 CTTTTTAAAGCAATCGTTG-TATTTAGCTGACCACTAAATCTAAAG-CCTACATTTATGACTTGTGTTTAGAAAGACGATTTGAATAATGATTTTCTAGAAAATAACAAGGTGAG------A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719157 115 - 185818997 TTTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAG-CCTATATTTGTGACTTGTGTTTAGAAAGACGATTTGACTAATGATTTTCTAGAAAATAACAAGACGAG-----AA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353833 115 - 192294377 TTTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAG-CCTATATTTGTGACTTGTGTTTAGAAAGACGATTTGACTAATGATTTTCTAGAAAATAACAAGACGAG-----AA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989868 114 -  30496662 -TTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAGCCCTATATTTGTGACTTGTGTTTAG-AAGACGATTTGACTAATGATTTTCTAGAAAATAACAAGACGAG-----AA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502460 115 +  21915920 TTTTTTCAAGCAATCATTG-TATTTAGCTGACCACTAAATCTAAAG-CCTATATTTGTGACTCGTGTTTAGAAAGATGATTTGATTAATGATTTTCTAGAAAATAACAAGATGAG-----AA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003162 116 -  90373283 TTTTTTCAAGCAATCATTG-CATTTAGCTGACCACTAAATCTAAAG-CCTGTATTTGTGACTTGTGTTTAGAAAGACGATTTGACTAATGATTTTCTAGAAAATAACAAGATGAG----AAA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5278896 115 -  13750039 CTTTTTTAAGCAATCATTG-TATTTAGCTGACCACTAAGTCTAAAG-CCTATATTTGTGACTTGTGTTTAGAAAGACGATTTGAATAATGATTTTCCAGAAAATAACAAGATGAG-----AA
i colAng1.NW_012120598v1    I 323 C 0
s calJac3.chr21              26535481 114 +  50472720 AAATTTCAGGCAATCATGG-TATATAGCTGACCACTTAATCTAAAA-TCTACATTTATGACTTGTGTTTAGAAAGATGATATGAATAAAAATTTTCTAAAAAATAACAAGGTGAG------A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715436 114 +  13128814 AAACTTCAGGCAATCAGTG-TATTTAGCTGACCACTTAATCTAAAG-TCTACATTTATGACTTGTGTTTAGAAAGATGATGTGAATAATGATTTTTTAAAAAATAACAAGGTAAG------A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13958975 114 -  14377064 AAACTTCAGGCAATCATTG-TATATAGCTGACTACTTAATGTAAAG-TCTACATTTATGACTTGTGTTTAGAAGGATGATGTGAATAATGATTTTCTAAAAAATAACAAGGTGAG------A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181813 110 -   9889416 AAATTT----CAATCATTG-TATATAGCTGACCACTTAATCTAAAG-TCTACGTTTATGACTTGTGTTTAGAAAGACGATGTGAATAATGATTTTCTAAAAAATAGCAAGGTGAG------A
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900540 121 -  38779656 ATATCTTGGGCAATTGTTGATATTCAGTTGAGCACTGAATGAACGG-TTGGTATTTATAATTTGTTCTCTGATAGAGAACTTGAATAATAATTTTTTAGAAAGTAGAAAAAAGAGAAAGAAG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e dasNov3.JH578070            2426231 386 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=149414.000000
s hg38.chr21_GL383579v2_alt    140794 17 +    201197 AAAATGTTAAGGCTATA
s panTro5.chr21               8759545 17 +  33445071 AAAATGTTAAGGCTATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298645 17 +  46275980 AAAATGTTAAGGCTATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281276 17 -  13858734 AAAATGTTAAGGCTATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305621 17 +  32716333 AAAATGTTAAGGCTATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719272 17 - 185818997 AAAATGTTAAGACTATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353948 17 - 192294377 AAAATGTTAAGACTATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989982 16 -  30496662 AAAATGTTAAGAC-ATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502575 17 +  21915920 AAAATGTTAAGACTATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003278 17 -  90373283 AAAATGTTAAGACTATA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5279011 17 -  13750039 AAAATGTTAAGACTATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535595 17 +  50472720 AAAATTGTAAGGCCATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8715550 17 +  13128814 AAAATTTTAAGTCTGCA
i saiBol1.JH378168          C 0 I 785
s cebCap1.NW_016107322v1     13959089 17 -  14377064 AAAATTTTAAGTCCATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181923 17 -   9889416 AAAATTTTAAGTCCATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900661 17 -  38779656 AAAACAGTAAGGCCATA
i otoGar3.GL873528          C 0 I 1
s dasNov3.JH578070            2426617 17 +   3081153 AAAACACTGAAGCCACA
i dasNov3.JH578070          I 386 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=1096048.000000
s hg38.chr21_GL383579v2_alt    140811 196 +    201197 -GAAACTATTGGAAACATC--TTTTCTTTCTTTCTATTCTAAGACTAAATATTTACC----------------ATCAAG-AAAAAATA--AGATGGAAGAAGAAATCT---TTGGTATGGTATAAACCAAAGTATGAATCCAT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCTTTCCAGTGTTCAT--------GAATAAAATTTCATCTA-CCTTCTATACAT
s panTro5.chr21               8759562 196 +  33445071 -GAAACTATTGGAAACATG--TTTTCTTTCTTTCCATTCTAAGACTAAATATTTACC----------------ATCAAG-AAAAAATA--AGATGGAAGAAGAAATCT---TTGGTATGGTATAAACCAAAGTATGAATCCAT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCTTTCCAGTGTTCAT--------GAATAAAATTTCATCTA-CCTTCTATACAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298662 196 +  46275980 -GAAACTATTGGAAACATG--TTTTCTTTCTTTCCATTCTAAGACTAAATATTTACC----------------ATCAAG-AAAAAATA--AGATGGAAGAAGAAATCT---TTGGTATGGTATAAACCAAAGTATGAATCCAT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCTTTCCAGTGTTCAT--------GAATAAAATTTCATCTA-CCTTCTATACAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281293 196 -  13858734 -GAAACTATTGGAAACATC--TTTTCTTTCTTTCTATTCTAAGACTAAATATTTATC----------------ATCAAG-AAAAAATA--AGATGGAAGAAGAAATCT---TTGGTATGGTATAAACCAAAGTATGAATCCAT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCTTTCCAGTGTTCGT--------GAATAAAATTTCATCTA-CCTTCTATACAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305638 198 +  32716333 -GAAACTATTAGAAACATC--TTTTCTTTCTTTCTATTCTAAGACTAAATATTTATC----------------ATCAAG-AAAAAATAACAGATGGAAGAAGAAATCT---TTGGTATGGTATAAACCAAAGTATGAATCCAT-ATGAGGAAATCAAGACCAATGCAAATGACTTCCTCTTTCCAATGTTCAT--------GAATAAAATTTCATCTA-CCTTCTATACAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719289 159 - 185818997 -GAAACTATTGGAAACATCTTTTTTTTTCCATTCTATTCTAAGACTAAATATTTATC----------------ATCAAGAAAAAAATAACAGATGGAAGAAGAAATCT---TCAGTATGTTATAAACCAAAGTATGAATCCGT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCT---------------------------------------------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167353965 158 - 192294377 -GAAACTATTGGAAACATC-TTTTTTTTCCATTCTATTCTAAGACTAAATATTTATC----------------ATCAAGAAAAAAATAACAGATGGAAGAAGAAATCT---TCAGTATGTTATAAACCAAAGTATGAATCCGT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCT---------------------------------------------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4989998 155 -  30496662 -GAAACTATTGGAAACATC-TTTTTTTTTCGTT-TATTCTAAGAC-AAATATTTATC----------------ATCAGAAAAAAAAT-ACCGATGGAAGAAGAAATCT---TCAGTATGTTATAAACCAAAGTATGAATCCGT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCT---------------------------------------------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502592 158 +  21915920 -GAAACTATTGGAAACATC-TTTTTTTTCCATTCTATTCTAAGACTAAATATTTATC----------------ATCAAGAAAAAAATAACAGATGGAAGAAGAAATCT---TCGGTATGTTATAAACCAAAGTATGAATCCGT-ATGAGGAAATCAAGAGCAATGTAAATGACTTCCTCT---------------------------------------------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003295 159 -  90373283 -GAAACTATTGGAAACATCTTTTTGTTTTCATTCTATTCTAAGACTAAATATTTATC----------------ATCAAGAAAAAAATAACAGATGGAAGAAGAAATCT---TCGGTATGTTATAAATCAAAGTATGAATCCGT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCT---------------------------------------------------
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5279028 157 -  13750039 -GAAACTATTGGAAACATCTTTTTTTTTTAATTCTATTCCAAGACTGAATATTTATC-----------------TCAAG-AAAAAATAACAGATGGAAGAAGAAATCT---TCGATATGTTATAAACCAAAGTATGAATCCAT-ATGAGGAAATCAAGACCAATGTAAATGACTTCCTCT---------------------------------------------------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535612 195 +  50472720 -GAAAGCGTTGGAAACATC--TTTTCTTTCTTTCTATTCTAAGACTAAATATTTATC----------------ATCAAG-AAAAAAGAATAG--GGAATAAGAAATCT-----GGCATGGTATAAACCAAAGTAAAAATCCAT-GGGAGAAAATCAAGACCAGCGTAAATGATTTCCTCCTTCCAATGTTCAT--------GAATAAAATTTTATCGACCCCCCTATCAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959106 194 -  14377064 -GAAAGTATTGGAAACATC--TTTTCTTTCTTTCTATTCTAAGACTAAATATTTATC----------------ACCAAG-AAAAAAGAACAG--GGAATAAGAAATCT-----GGCATGGTATAAACCAAAGTAAGAATCCAT-GGGAGAAAATCAACACCAACGTAAATGACTTCCTCCTTCCAATGTTCAT--------GAATAAAATTTCATCGA-CCTCCTATCAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9181940 194 -   9889416 -CAAAGTATTGGAAACATC--TTTTCTTTCTTTCTATTCTAAGGCTAAATATTTATT----------------ACCAAG-AAAAAAGAACAG--GGAATAAGAAATCT-----GATATGGTATAAACCAAAGTAACAATCCAT-GGGAGAAAATCAAGACCAACGTAAATGACTTCCTGCTTCCAATGTTCGT--------GAATAAAATGTCATTGA-CTTCCTATCAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24900679 196 -  38779656 -GAAAGTAGTAGAAATATC--TTTCCTTTCTTCCTAATCTAAGACTAAAGATTTTCC----------------ACTAAG-AAAAGAGCAAATGTTAAGGATGAAACCT-----GTTATGCTGTAAACCAAAGTATAAATCCAT-CTGGTCAACCCATGACCATACCAGATGACTTCCTTCTTTCAGTGCTCAC--------AACGGAAGGTTCAAATA-CTTCCTGTAGAT
i otoGar3.GL873528          I 1 I 963
s dasNov3.JH578070            2426634 207 +   3081153 GGAACGTGTTTGGAATGTC--TTCTCTTCCTCT----TCTAAGATTAAGGATTTGCTGTATACCAGTATCTAAATCAAG-AAAATAGA--ACATGTTTGACTAAATCTGTTTTTGTATGTT-------AAAGTATGAATCTTTAATGATGGAAGGAAGACCATGTCAAATGGCTCCCTCCTTCCAGTGTCCTTGGTACTGAGGGCGTAATTTCAT----CTTCCTGT----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=12691.000000
s hg38.chr21_GL383579v2_alt    141007 7 +    201197 GATGGTT---
s panTro5.chr21               8759758 7 +  33445071 GATAGTT---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298858 7 +  46275980 GATAGTT---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281489 7 -  13858734 GATGGTT---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305836 7 +  32716333 GATGGTT---
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26535807 7 +  50472720 GATGGTT---
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959300 7 -  14377064 GATGGTT---
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9182134 7 -   9889416 GTTGGTT---
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2426841 7 +   3081153 ---GGCTGTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730189 748 +  47401472 I
e cerAty1.NW_012002954v1     13502750 0 +  21915920 C
e macNem1.NW_012015021v1      4990153 0 -  30496662 C
e macFas5.chr3              167354123 0 - 192294377 C
e rheMac8.chr3              160719448 0 - 185818997 C
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e colAng1.NW_012120598v1      5279185 0 -  13750039 C
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M
e chlSab2.chr2               20003454 0 -  90373283 C

a score=153770.000000
s hg38.chr21_GL383579v2_alt    141014 34 +    201197 CTATCTGGCTAGTGTCCAAGGACAAAGACCATCA
s panTro5.chr21               8759765 34 +  33445071 CTAACTGGCTAGTGTCCAAGGACAAAGACCATCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298865 34 +  46275980 CTATCTGGCTAGTGTCCAAGGACAAAGACCATCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281496 34 -  13858734 CTATCTGGCTAGTGTCCAAGGACAAAGACCATCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305843 34 +  32716333 CTACCTGGCTAGTGTCCAGGGATAAAGACCATCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719448 13 - 185818997 ---------------------GCAAAGACCATCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354123 13 - 192294377 ---------------------GCAAAGACCATCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990153 13 -  30496662 ---------------------GCAAAGACCATCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502750 13 +  21915920 ---------------------GCAAAGACCATCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003454 13 -  90373283 ---------------------GCAAAGACCATCA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5279185 13 -  13750039 ---------------------GCAAAGACCATCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535814 34 +  50472720 CTATCTGGCTAGTGTCCAAGGACAAAGATCATCC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959307 34 -  14377064 CTATCTGGCTAATGTTCAAGGACAAAGATCATCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9182141 34 -   9889416 CTATCTGGCTAGTGTCCGGGGACAAAGATCATCA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23730937 34 +  47401472 CTATCTGGCTAGTGACCAAGGACAGAGAGCATCA
i micMur3.chr31             I 748 I 3516
s dasNov3.JH578070            2426848 34 +   3081153 CTATCTGGTTATTGTCCCAAAGAAGAGGCCATCA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=1778030.000000
s hg38.chr21_GL383579v2_alt    141048 238 +    201197 -TTTTTACTACTGATGTTTGTATAGTGGCAGGAAGATAAATGAGTAAAGTTATCTGTTTCTTGTGAAATGATGAAGTATTGTGAACAATATGCATGCCCAAATTAACAAAAACATGTTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CAAGAGCATGGAATCAAGAAAAGGGTAGGGTTATATTTGAAGCAGGAGATTTAAAAATATGGAACTAGACATGATTCTCAAAATTAG
s panTro5.chr21               8759799 238 +  33445071 -TTTTTACTACTTATGTTTGTATAGTGTCAGGAAGATAAATGAGTAAAGTTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATGTTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CAAGAGCATGGAATCAAGAAAAGGGTAGGGTTATATTTGAAGCAGGAGATTTAAAAATATGGAGCTAGACATGATTCTCAAAATTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22298899 238 +  46275980 -TTTTTACTACTTATGTTTGTATAGTGTCAGGAAGATAAATGAGTAAAGTTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATGTTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CAAGAGCATGGAATCAAGAAAAGGGTAGGGTTATATTTGAAGCAGGAGATTTAAAAATATGGAGCTAGACATGATTCTCAAAATTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281530 238 -  13858734 -TTTTTACTACTTATGTTTGTATAGTGTCAGGAAGATAAATGAGTAAAGTTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAGTTAACAAAAACATATTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CAAGAACATGGAATCAAAAAAAGGGTAGGGTTATATTTGAAGCAGGAGATTTAAAAATATGGAACTAGACATGATTCTCAAAATTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9305877 237 +  32716333 --TTTTACTACTTATGTTTGTATAGTGTCAGGAAGATAAATGAGTAAAGTTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATAAAATGAATGGAAATCCAGA-CAAGAGCATGGAATCAAAAAAAGGGTAGGGTTATATTTGAAGCAGGAGATTTAAAAATATGGAACTAGACATGATTCTCAAAATTAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719461 236 - 185818997 -TTATTACTACTTATGTTTATATAGTGTAAGGAAGATAAATGGGTAAAACTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CGAAAGCATAGAATCA--AAATGGGTAGAGTTATACTTGAAGCAGGGGATTTAAAAATATGGAACTAGGCATGATTCTCAAAACTAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354136 236 - 192294377 -TTATTACTACTTATGTTTATATAGTGTAAGGAAGATAAATGGGTAAAACTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CGAAAGCATAGAATCA--AAATGGGTAGAGTTATACTTGAAGCAGGGGATTTAAAAATATGGAACTAGACATGATTCTCAAAACTAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990166 236 -  30496662 -TTATTACTACTTTTGTTTATATAGTGTAAGGAAGATAAATGGGTAAAACTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CGAAAGCATAGAATCA--AAATGGGTAGAGTTATACTTGAAGCAGGGGATTTAAAAATATGGAACTAGACATGATTCTCAAAACTAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502763 236 +  21915920 -TTATTACTACTTATGTTTATATAGTGTAGGGAAGATAAATGGGTAAAACTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATGAAATGAATGGAAATCCAGA-CGAAAGCATAGAATCA--AAATGGGTAGAGTTATACTTGAAGCAGGGGATTTAAAAATATGGAACTAGACATGATTCTCAAAACTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003467 228 -  90373283 -TTATTACTACTTATGTTTATATAGTGTAAGGAAGATAAATGGGTAAAACTATCTGTTTCTTGTGAAATGAT---GTATTATGAACA----GCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATGAAATAAATGGAAATCCAGA-CGAAAGCATAGAATCA--AAATGGGTAGAGTTATACTTGAAGCA-GAGATTTAAAAATATAAAACTAGACATGATTCTCAAAACTAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5279198 236 -  13750039 -TTATTACTACTCATGTTTATATAGTGTAAGGAAGATAAATGAGTAAAACTATCTGTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGCCCAAATTAACAAAAACATATTACATAAAAATAAATGAAATGAACGGAAATCCAGA-CGAAAGCATAGAATCA--AAATGGGTAGAGTTATACTTGAAGCAGGAGATTTAAAAATATGGAATTAGGCATGATTCTCAAAACTAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26535848 235 +  50472720 -TTATTAGTACTTATGTTTGTATAGTGTAAGGAACATAAATGAGTAAAGTTATC-TTTTCTTGTGAAATGATGAAGTATTATGAACAGTATGCATGAATAAATTAACAAAAACATATAACATAAGAATACATGAAACAAACGGAAATCCAGA-AAAAGGTATGGAATCA--AAATAGGTAGAGCAATATTTGAGGCAGGAGCTTAAAAATTATGGAACTAGATATAATTCTGAAAACTAG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959341 236 -  14377064 -TTATTGCTACTTATGTTTGTATAGTGTAAGGAAGATAAATGAGTAAAGTTATCTTTTTCTTGTGAAATGATGAAGTATTATGAACAATATGCATGAATAAATTAACAGAAACATATAACATAAAAATACATGAAATGAATGGAAATCCAGA-AAAAAGTATGAAATCA--AAATAGGTAGAGCAGTATTTGAGGCAGGAGCTTAAAAATTATGGAACTAGACATAATTCTGAAAACTAG
i cebCap1.NW_016107322v1    C 0 I 3
s aotNan1.NW_018487195v1      9182175 236 -   9889416 -TTATTACTACTTATGTTTGTATAGTGTAAGGAAGATAAATGAATAAAGTTATCTTTTTCTTGTGAAATGATGAAGTAATATGAACAATATGCATGAATAAATTAACAAAAACATACAACAAAAAAATACATGAAACGAATGGAAATCAAAA-AAAAAGTATGAAATCA--AAATAGGTAGAGCAGTATTTGAGGCAAGAGCTTAAAAACTATGGAACTAGACATAATTTTGAAAACTAG
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2426882 237 +   3081153 ATAAATACTACCCATGATTACATAGTGTAAAGCTGATAGGGGAGTAAAATCATCTGTCTATTATGAAGGAATAAAGAAGGGTGAACAACATGCATGAATAGATTACCAAATACTTGTCACATAA-AATCACTGGACTAAATGGAAATCAGGAGCCAAAACATGGACATA--AAGTAAGTCAAGTGAGGGTGGAAACACTATATTGAAAAATAAAGAGCTGTACATTATTTTCAAAACAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=43393.000000
s hg38.chr21_GL383579v2_alt    141286 9 +    201197 TTATAGCGC
s panTro5.chr21               8760037 9 +  33445071 TTATAGCGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22299137 9 +  46275980 TTATAGCGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281768 9 -  13858734 TTATAGAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9306114 9 +  32716333 TTATAGAGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719697 9 - 185818997 TTATAGAGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354372 9 - 192294377 TTATAGAGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990402 9 -  30496662 TTATAGAGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13502999 9 +  21915920 TTATAGAGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003695 9 -  90373283 TTATAGAGC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5279434 9 -  13750039 TTATAGAGC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536083 3 +  50472720 ------AAT
i calJac3.chr21             C 0 C 0
s aotNan1.NW_018487195v1      9182411 3 -   9889416 ------AAT
i aotNan1.NW_018487195v1    C 0 I 1
s dasNov3.JH578070            2427119 9 +   3081153 TTAAAGAGC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e cebCap1.NW_016107322v1     13959577 3 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=365809.000000
s hg38.chr21_GL383579v2_alt    141295 50 +    201197 ATTCTTTTGAAATCAAATGTACTGAGG-TAAAGGTAATAGAGAATGAAGAG
s panTro5.chr21               8760046 50 +  33445071 ATTCTTTTGAAATCAAATGTACTGAGG-TAAAGGTAATAGAGAATTAAGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22299146 50 +  46275980 ATTCTTTTGAAATCAAATGTACTGAGG-TAAAGGTAATAGAGAATTAAGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281777 50 -  13858734 ATTCTTTTGAAATCAAATGTACTGAGG-TAAAGGTAATAGAGAATTAAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9306123 50 +  32716333 ATTCTTTTGAAATCAAATGTACTGTGA-TAAAGGTAATAGAGAATTAAGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719706 50 - 185818997 ATTCTTTTGAAGTCAAATGTACTGAGA-TAAAGGTAATAGAGGACTAAGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354381 50 - 192294377 ATTCTTTTGAAGTCAAATGTACTGAGA-TAAAGGTAATAGAGGACTAAGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990411 50 -  30496662 ATTCTTTTGAAGTCAAATGTACTGAGA-TAAAGGTAATAGAGGACTAAGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13503008 50 +  21915920 ATTCTTTTGAAGTCAAATGTACTGAGA-TAAAGGTAATAGAGGACTAAGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003704 50 -  90373283 ATTCTTTTGAAGTCAAATGTACTGAGA-TAAAGGTAATAGAGGACTAAGAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5279443 50 -  13750039 ATTCTTTTGAAGTCAAATGTACTGAGA-TAAAGGTAATAGAGAACTAAGAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536086 49 +  50472720 ATTCTTTAGAAATTAAAAGTATTGAGA-TAAAGGTAATAGAGAA-TAAGAG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959580 49 -  14377064 ATTCTTTGGAAATTAAAATAATTGAGA-TAAAGGTAATAGAGAA-TTAGAG
i cebCap1.NW_016107322v1    I 3 C 0
s aotNan1.NW_018487195v1      9182415 50 -   9889416 -TTCTTAGGAAATTAAAAGTATTGAGATTAAAGGTAATAGAGAATTAAGAG
i aotNan1.NW_018487195v1    I 1 C 0
s dasNov3.JH578070            2427128 50 +   3081153 AGTCTTATTAAAGCAGATATAGTAAGA-TAAAGAGAATAGATTAAAAAAGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e manLeu1.NW_012103476v1      3509741 1760 +   7543664 M

a score=48675.000000
s hg38.chr21_GL383579v2_alt    141345 5 +    201197 ACTTA
s panTro5.chr21               8760096 5 +  33445071 ACTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22299196 5 +  46275980 ACTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281827 5 -  13858734 ACTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9306173 5 +  32716333 ACTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719756 5 - 185818997 ACTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354431 5 - 192294377 ACTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990461 5 -  30496662 ACTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13503058 5 +  21915920 ACTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003754 5 -  90373283 ACTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3511504 5 +   7543664 ACTTA
i manLeu1.NW_012103476v1    M 1760 C 0
s colAng1.NW_012120598v1      5279493 5 -  13750039 ACTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536135 5 +  50472720 ACTTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959629 5 -  14377064 ACTTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9182465 5 -   9889416 ACTTA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2427178 5 +   3081153 TTTCA
i dasNov3.JH578070          C 0 I 413
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=2688811.000000
s hg38.chr21_GL383579v2_alt    141350 316 +    201197 GATCTAGAAAGAATGTAAATGGGTTTACATAGACTATAAATCA---ATACATTTTATTTATTTTGTTTAGCCTA-TGAGTAT---ATGGAGAGTTT----TCAAATGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAAATATAATAAAATAGAGTTAAGTGGTTGCCTGAACCCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAG-----------TATTGAATGTCTTCAAAACA-GACAAAAGAGAGAGGATATTATCTTTTGAAAAACTGCAATCA-AATAGTCTGTTTGTGGCTTT--CTTACTTCATGGTATTTTCTGA
s panTro5.chr21               8760101 316 +  33445071 GATCTAGAAAGAATGTAAATGGGTTTACATAGACTATAAATCA---ATAAATTTTATTTATTTTGTTTAGCCTA-TGAGTAT---ATGGAGAGTTT----TCAAATGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAAATATAATAAAATAGAGTTAAGTTGTTGCCTGAACCCTCATGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAG-----------TATTGAATGTCTTCAAAACA-GACAAAAGAGAGAGGAGATTATCTTTTGAAAAACTGCAATCA-AATAGTCTGTTTGTGGCTTT--CTTACTTCATGGTATTTTCTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22299201 316 +  46275980 GATCTAGAAAGAATGTAAATGGGTTTACGTAGACTATAAATCA---ATAAATTTTATTTATTTTGTTTAGCCTA-TGAGTAT---ATGGAGAGTTT----TCAAATGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAAATATAATAAAATAGAGTTAAGTTGTTGCCTGAACCCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAG-----------TATTGAATGTCTTCAAAACA-GACAAAAGAGAGAGGAGATTATCTTTTGAAAAACTGCAATCA-AATAGTCTGTTTGTGGCTTT--CTTACTTCATGGTATTTTCTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8281832 316 -  13858734 GATCTAGAAAGAATGTAAATGGGTTTACATAGACTATAAATCA---ATAAATTTTATTTATTTTGTTTAGCCTA-TGAGTAT---ATGGAGAGTTT----TCAAATGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAAATATAATAAAATAGAGTTAAGTGGTTGCCTGAACCCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAG-----------TATTGAATGTCTTCAAAATA-GACAAAAGAGAGAGGAGATTATCTTTTGAAAAACTGCAATCA-AATAGTCTGTTTGTGGCTTT--CTTACTTCATGGTATTTTCTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9306178 316 +  32716333 GATCTAGAAAGAATGTAAATGGGTTTACATAGACTATAAATCA---ATACATTTTATTTATTTTATTTAGCCTA-TGAGTAT---ATGGAGAGTTT----TCAAGTGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAAATATGGTAAAATAGAATTAAGTGGTTGCCTGAACCCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAG-----------TATTGAATGTCTTCAAAATA-GACAAAAGAGAGAGGAGAATATCTTTTGAAAAATTGCAATCA-AATAGTCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160719761 315 - 185818997 GATCTATAAAGAATGTAAATGGGTTTACATAGAATATAAATCA---ATATATTTTATTTATTTTGTTTAAGCTA-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATGTCAGTGGTAGTGAAATACAATAAAATAGAGTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAT-----------TATTAAATGTCTTC-AAGTA-GACAAAAGTCAGAGGAGAATATCTTTCGAAAAATGACAATCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCCGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354436 315 - 192294377 GATCTATAAAGAATGTAAATGGGTTTACATAGAATATAAATCA---ATATATTTTATTTATTTTGTTTAAGCTA-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATGTCAGTGGTAGTGAAATACAATAAAATAGAGTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAT-----------TATTAAATGTCTTC-AAGTA-GACAAAAGTCAGAGGAGAATATCTTTCGAAAAATGACAATCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCCGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990466 315 -  30496662 GATCTATAAAGAATGTAAATGGGTTTACATAGAATATAAATCA---ATATATTTTATTTATTTTGTTTGAGCTA-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATGTCAGTGGTAGTGAAATACAATAAAATAGAGTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAT-----------TATTAAATGTCTTC-AAGTA-GACAAAAGTCAGAGGAGAATATCTTTCGAAAAATGACAATCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCCGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13503063 315 +  21915920 GATCTATAAAGAATGTAAATGGGTTTACATAGACTATAAATCA---ATATATTTTATTTATTTTGTTTAAGCTA-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATGTCAGTGGTAGTGAAATACAATAAAATAGAGTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTAT-----------TATTAAATGTCTTC-AAGTA-GACAAAAGTCAGAGGAGAATATCTTTCGAAAAATGGCAATCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCCGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20003759 315 -  90373283 GATCTATAAAGAATGTAAATGGGTTTACATAGAATATAAATCA---ATATATTTTATTTATTTTGTTTAAGCTG-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATATCAGTGGTAATGAAATACAGTAAAATAGAGTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTAT--GACATACGAATAA-----AA------TAATATTTGAAAGTAT-----------TATTAAATGTCTTT-GAGTA-GACAAAAGTCAGAGGAGAGTATCTTTCGAAAAATGGCAGTCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCCGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3511509 317 +   7543664 GATCTATAAAGAATGTAAATGGGTTTACATAGAATATAAATCA---ATATATTTTATTTATTTTGTTTAAGCTA-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATGTCAGTGGTAGTGAAATACAGTAAAATAGAGTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTATTAAAAATATGAATAA-----AA------TAAAATTTGAAAGTAT-----------TATTAAATGTCTTC-GAGTA-GACAAAAGTCAGAGGAGAATATCTTTCGAAAAATGGCAATCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCATGGTATTTTCCGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5279498 326 -  13750039 GATCTATAAAGAATGTAAATGGGTTTACATAGAATATAAATCA---ATATATTTTATTTATTTTGTTTAAGCTA-TGAATAT---ATGGAGAGTTT----TCAAATGTTAATTGGAG---------------TCAATGTCAGTAGTAGTGAAATACAATAAAATAGATTTAAGTGGTTGCCTGAACTCTCCTGCAGATAATTATTAT--GAAATATGAATAA-----AA------TAATATTTGAAAGTATTATTAAATGTCTATTAAATGTCTTC-GAGTA-GACAAAAGTCAGAGGGGAATATCTTTTGAAAAATGGCAATCA-AGTAGCCTGTTTGTGGCTTT--CTTACCTCGTGGTGTTTTCTGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536140 315 +  50472720 GCTCTATAAAGAATGTAAATGGGTTTACATAGAATGTAAATCA---ATACATTTAATTCATTTTGTTTAGCCTA-TGAGTAC---CTGGAGAGTTT----TCAAATGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAATTATAATAAAGTA-----AAGTGGTTGCCTGAACCCTTCTGCAGATAATCATAAT--GAAATGCAAATAA-----AATAAAACTAATATTTACAAATAT-----------TGTTAAATGTCTTCAAATGTAGACAAAAGACAAAGGAGAATATTTTTTGAAAAATTGCAATCA-AGTAGCCTGTTTTTGGCTTT--CTTACCTCA---TATTTTCTGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959634 317 -  14377064 GATCTATAAAGAATGTAAATGGGTTTACATAGAATGTAAATCA---ATACACTTTATTCATTTTGTTTAGCCTA-TGAGTAC---ATGGAGAGTTT----TCAGATGTTAACTGGAG---------------TCAATGTCAGTGGTAGTGAAATATAATAAAGCA--GTTAAGTGGTTGCCTGAACCCTCCTACAGATAATCATTat--gaaatacaaataa-----aataaaactaatatTTACAAGTAT-----------TATTAAATGTCTTCAAATTT-GGCAAAAGACAAAGGAGAATATCTTTTGAAAAATTGCAATCA-AATAGCCTGTTTTTGGCTTT--CTTACCTCA---TATTTTCTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9182470 319 -   9889416 GATCTATAAAGAATGTAAATGGGTTTACATAGAATGTAAATCA---ATATACTTTATTTATTTTGTTTAGCCTG-TGAGTAC---ATGGAGAGTTT----TCAAATGTTAACTGGAG---------------TCAATGTCAGTGGTAATGAAATATAATAAAGTAGAGTTAAGTGGTTGCCTGACCCCTCCTGCAGATAATCATTat--gaaatacaaataa-----aataaaactaatatCTACAAGTAT-----------TATTAAATGTCTTCAAATTA-GACAAAAGACAAAGGAGAATATCTTTTGAAAAATTGCAATCA-AATAGCCTGTCTTTGGCTTT--CTTACCTCA---TATTTTCTGA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2427596 340 +   3081153 GATATATAAAGAATCTGAATATGCTTCAACAAAATATAAATCAAATATTAATTTTGT---TTTTGTTTGTGCTACTAAATCTTTAATGGAAAGTTCATAATAAAGAAAAAATTGGTGGATTTCATGTATTTTTTAATGGCAGTTTTGTTGCCATCTTAGAAAATACAGT-GAGTTATTGCACAAATTGTCCTACAGATAGTAGTTAT--AAAATCTGaataaattttaa------aaataattaaaa-tat-----------CCAGAAAAGTCCCA-AAGCA-AACAGAAGACAA--GAGAGTTCCTCTTGGGAAAT--CAACCAGAAGGGACTGTCTGTGTTTTCTGCTTGCTTTAGAGTGCTTTTTTA
i dasNov3.JH578070          I 413 I 459
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=4285006.000000
s hg38.chr21_GL383579v2_alt    141666 515 +    201197  
s panTro5.chr21               8760417 515 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22299517 515 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8282148 517 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9306494 514 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160720076 524 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167354751 524 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4990781 526 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13503378 526 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20004074 529 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3511826 529 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5279824 528 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536455 504 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13959951 506 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9182789 502 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2428395 486 +   3081153  
i dasNov3.JH578070          I 459 I 67
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=292362.000000
s hg38.chr21_GL383579v2_alt    142181 40 +    201197 ATGAA-AGAGGGGACAGCCAGGGATTTAGGCTTAAAAAAAT
s panTro5.chr21               8760932 40 +  33445071 ATGAA-AGAGGGGACTGCCAGGGATTTAGGCTTAAAAAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22300032 40 +  46275980 ATGAA-AGAGGGGACTGCCAGGGATTTAGGCTTAGAAAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8282665 40 -  13858734 ATGAA-AGAGGGGACTGCCAGGGATTTAGGCTTAAAAAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9307008 39 +  32716333 ATGAA-AGGGGGGACTGCCAGGGATTTAGGCTTAAAAAAA-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160720600 39 - 185818997 ATGAACAGAGGGGACTGCCAGGGATCTAGGCTTAAAAAA--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167355275 39 - 192294377 ATGAACAGAGGGGACTGCCAGGGATCTAGGCTTAAAAAA--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4991307 39 -  30496662 ATGAACAGAGGGGACTGCCAGGGATCTAGGCTTAAAAAA--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13503904 39 +  21915920 ATGAACTGAGAGGACTGCCAGGGATCTAGGCTTAAAAAA--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20004603 39 -  90373283 ATGGACTGAGGGGACTGCCAGGGATCTAGGCTTAAAAAA--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3512355 39 +   7543664 ATGAACTGAGGGGACTGCCAGGGATCTAGGCTTAAAAAA--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5280352 39 -  13750039 ATGAACTGAGGGGACTGCCAGGGATCTAGGCTTAAAAAA--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536959 39 +  50472720 ataaacagaggggactgccaagGATTTAGCCTTGAAAAA--
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13960457 39 -  14377064 ATAAACAGAGGGGACTGCCAAGGAGTTAGGCTTGAAAAA--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9183291 39 -   9889416 ATAAACAGAGGGGACTGCCAAGGATTTAGGCTTGAAAAA--
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2428881 67 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=2938924.000000
s hg38.chr21_GL383579v2_alt    142221 357 +    201197 ----TATATTTGCCTCTAT---------------AAGCTGTAAG---AACCacaacaac-aaaaagtgttcagaagaacagaatggaagacagacttgcagtgaagtattatttatgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattacgtctgaacaggaccagatgctacatttcacagaaaaaaaaaaagactccaaagtaattattataaacatgctcgaaaaatgaaagaaaaatatattcaaggaaataaagaca-----gtcttcaggagttacagat-acattatatggttatatgaatagag-aaaaagtaaactata
s panTro5.chr21               8760972 355 +  33445071 ----TATATTTGCCTCTAT---------------AAGCTGTAag---aacaacaacaac-aaaaagtgttcagaagaacagaatggaagacagacttgcagtgaagtattatttctgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacag--aaaaaaaaagactccaaagtaattattataaacatgctcgaaaaatgaaagaaaaatatattcaaggaaataaagaca-----gtcttcaggagttacagat-acattatatggttatatgaatagag-aaaaagtaaactata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22300072 355 +  46275980 ----TATATTTGCCTCTAT---------------AAGCTGTAag---aacaacaacaac-aaaaagtgttcagaagaacagaatggaagacagacttgcagtgaagtattatttatgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacag--aaaaaaaaagactccaaagtaattattataaacatgctcgaaaaatgaaagaaaaatatattcaaggaaataaagaca-----gtcttcaggagttacagat-acattatatggttatatgaatagag-aaaaagtaaactata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8282705 352 -  13858734 ----TATATTTGCCTCTAT---------------AAGCTGTAag---aacaacaacaac-aaaaagtgttcagaagaacagaatgtaagacagacttacagtgaagtattatttatgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacag-----aaaaaagactccaaagtaattattataaacatgctcaaaaaatgaaagaaaaatatattcaaggaaataaagaca-----gtcttcaggagttacagat-acattatatgattatatgaatagag-aaaaagtaaactata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9307047 348 +  32716333 ----TATATTTGCCTCTAT---------------AAGCTGTAag---aacgacaacaac-aaaaagtgttcagaagaacagaatggaagacagacttgcagtgaagtattatttacgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggattatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccggatgtt-------ccag--aaaaaaaaagactccaaagtaattattataaacatgctgaaaaaatgaaagaaaaatgtgttcaaggaaataaaggca-----gtcttcagcagttacagat-acattatatggttatatgaatacag-aaaaaataaactata
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160720639 351 - 185818997 ----TATATTTGCCTCTAT---------------ATGCTGTAAG---aacaacaacaacaaaaaagtgttcagaagaacagaatggaagacagactttcagtgaaatactatttacgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacat----aaaaaaagactccaaagtaatcattataaacatgctcaaaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttacagataacattatatggctatatgaatagag-aaa----aaaatata
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167355314 351 - 192294377 ----TATATTTGCCTCTAT---------------ATGCTGTAag---aacaacaacaacaaaaaagtgttcagaagaacagaatggaagacagactttcagtgaaatactatttacgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacat----aaaaaaagactccaaagtaatcattataaacatgctcaaaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttacagataacattatatggctatatgaatagag-aaa----aaaataaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4991346 351 -  30496662 ----TATATTTGCCTCTAT---------------ATGCTGTAag---aacaacaacaacaaaaaagtgttcagaagaacagaatggaagacagactttcagtgaaatactatttacgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgcagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacat----aaaaaaagactccaaagtaatcattataaacatgctcaaaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttacagataacattatatggctatatgaatagag-aaa----aaaatata
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13503943 353 +  21915920 ----TATATTTGCCTCTAT---------------AAGCTGGAag---aacaacaacaacaaaaaagtgttcagaagaacagaatggaagacagactttcagtgaaatactatttacgatggctag-----gtttcagccaaaaagtgttagacaagcatag-aacaggaatatatgacccacattcaggaaaacaatgtagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacag----aaaaaaagactccaaagtaatcattataaacatgctcaaaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttacagat-acattatatggctatatgaatagag-aaa-aataaactata
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20004642 349 -  90373283 ----TATATTTGCCTCTAT---------------AAGCTGGAAG---AACAACAACAACAAAAAAGTGTTCAGAAGaaca-----gaagacagactttcagtgaaatattatttacgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccatattcaggaaaacaatgtagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacag----aaaaaaagtctccaaagtaatcattataaacatgctcaaaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttacagat-acattatatggctatatgaatagagaaaa-aataaactata
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3512394 353 +   7543664 ----TATATTTGCCTCTAT---------------AAGCTGTAAG---aacaacaacaacaaaaaagtgttcagaagaacagaatggaagacagactttcagtgaaatactatttacgatggctag-----ttttcagccaaaaagtattagacaagcatag-aacaggaatatatgacccacattcaggaaaacaatgtagtcagtggaaattatgtctgaacaggaccagatgttgcatttcacag----aaaaaaagactccaaagtaatcattataaacatgctcaaaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttaccgat-acattatatggctatatgaatagag-aaa-aataaactata
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5280391 355 -  13750039 ----TATATTTGCCTCTAT---------------AAGCTGTAAGaacaacaacaacaacaaaaaagtgttcagaagaacagaatggaagacagactttcagtgaaatattatttacgatggctaa-----ttttcaaccaaaaagtattagacaagcatag-aacaggaataaatgacccatattcaggaaaacaatgtagtcagtggaaattatgtctgaacaggaccagatattgcatttcacag-----aaaaaagactccaaagtaatcattataaacatgctc-aaaaatgaaagtaaaacatattcaagcaaataaaggca-----gtcttcaggagttacagat-acattatatggctatatgaacagag-aaaaaataaactata
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26536998 348 +  50472720 ----TATATTTGCCTCACT---------------AAGCTATAAG---AACAATAACAAC-AAAAAGTGTTTAGAAGAACAGAATGAAAGAcagacttacagtgaaatattacttacaatggctag-----ttttcaaccgaaaagcattagacaagcatac-agctggaatatatgacccatattcaggaaaacaatgtggtcagtggaaattatatctgaatagaaccagatgttgcattttacag----aagaaaatactacaaagtaattattacaaacatgttcaaaaaactaaaagtatatattttcaaggaaataaagACAAAACAGTCTTCGGG-ATTACAGAT-ATTT--------TATATGAATAGAG-AAA-AATAAACTGTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13960496 348 -  14377064 ----TATATTTGCCTCTGT---------------AAGCTGTAAG---AGCaataacaat-aaaaagggttcagaagaacagaatgaaagacagacttgcagtgaaatattatttacgatggctag-----ctttcaaccaaaaagcactagacaagcatag-agctggaatatataacccatattcagtaaaacaatgtggtcagtggaaattatgtctgaatagaaccagatgttgcattatatag----aagaaaatactacaaagtaattattataaacatgttcaaaaaactaaaaaaatatattttcaaggaaataaaggcaaaattgtcttcagg-gttacagat-actt--------tatatgaatagag-aaa-aatgaactgta
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9183330 353 -   9889416 ----TATATTTGCCTCTAT---------------AAGCTGTAAG---AGCaataacaat-aaaaagtgttcagaagaacagaatgaaagacagacttgcagtgaaatattatttacaatggttgaaaactattttaaccaaaaagcactagaaaagcatag-agctggaatatatgacccatattcaggaaaacaatctggtcagtggaagttatgtctgaatagaaccagatactgcattttacag----aagaaaatactacaaagtaattattataaacatgttcaaaaaactaaaaaaatatattttcaaggagataaaggcaaaacagtcttcggg-gttacagat-attt--------tatatgaatagag-aaa-aataaactgta
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2428948 356 +   3081153 tctatctatctatATCTATATACATCCAGTCAGGAAACTGTAAG---aataacaatgac-aagtttttttaagaagaaaaaaataaagtccagacttattgcacaatattatccacaaggaccag-----ttttcaacaagtaattactggacatacaaagaaacattaaagtgtgacatatattctggaaaaaaaag-aatcaatggacat------tgagcagggtcacattttatatttaacaa----------agactgcaaagcagt-attataagcatgttcaaaacatgaagggaaaatttctttgcagaaataaaggaaaagttgacttaatgtgttaaaaac--------taggctatatcaaaaaag-aaa-tgaaaactaca
i dasNov3.JH578070          I 67 I 29736
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=2645813.000000
s hg38.chr21_GL383579v2_alt    142578 370 +    201197 aaaattagaaacactctagtttagatgtacactcttaaaactaaaaaaattattgagtcatctcagtggtaatttagagatggcagataaaagaatctgtaaactttaggatagattaatgaatattcctccatccaaaagataaagaaaaaaggactgataaaaa-tgaacacagtcttaatagacctttgtgataatatagggaaagcaaac----aaaaaaattaattaagatcttaaaagaaaaggtatgtaaagtgcaggtaaaaaccaaacaaatatttgaagaaatactgtcttaaatttgttg-aaaaatattatc---------tt------------------tttttgtaaaacattatcttttagattttaaaagctaaacatttccaagt
s panTro5.chr21               8761327 368 +  33445071 aaaattagaaacactctagtttagatgtacactcttaaaactaaaaaaattattgagtcatctcagtggtaatttagagacggcagataaaagaatctgtaaactttaggatagattaatgaatattcctccatccaaaagacaaagaaaaaaggactgataaaaa-tgaacacagtcttaatagacctttgtgataatatagggaaatcaaac-----aaaaaattaattaagatcttaaaagaaaaggtatgtaaagtgcaggtaaaaatcaaacaaatatttgaagaaatactgtcttaaatttgttg-aaaaatattatc---------tt------------------tttttgtaaaaca-tatcttttagattttaaaagctaaacatttccaagt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22300427 369 +  46275980 aaaattagaaacactctagtttagatgtacactcttaaaactaaaaaaattattgagtcatctcagtggtaatttagagacggcagataaaagaatctgtaaactttaggatagattaatgaatattcctccatccaaaagataaagaaaaaaggactgataaaaa-tgaacacagtcttaatagacctttgtgataatatagggaaatcaaac----aaaaaaattaattaagatcttaaaagaaaaggtatgtaaagtgcaggtaaaaatcaaacaaatatttgaagaaatactgtcttaaatttgttg-aaaaatattatc---------tt------------------tttttgtaaaaca-tatcttttagattttaaaagctaaacatttccaagt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8283057 372 -  13858734 aaaattagaaacactctagtttagatgtacactcttaaaactaaaaaaattattgagtcatcttggtggtaatttagagacggcagataaaagaatctgtgaactttaggatagattaatgaatattcctccatccaaaagataaagaaaaaaggactgataaaaa-tgaacacagtcttaatagacctttgtgataatatagggaaatcaaacag--aaaaaaattaattaagatcttaaaagaaaaggtatgtaaggtgcaggtaaaaaccaaacaaatatttgaagaaatactgtcttaaatttgtgg-aaaaatattatc---------tt------------------tttttgtaaaacattatcttttagattttaaaagctaaacatttccaagt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9307395 368 +  32716333 aaaattagaaacactctagtttagatgtacactcttaaaactaaaaaaattattgagtcatctcagtggtagtttagagatggcagataaaagaatcgttaaactttaggatagattaatgaatattcctctatccaaaagacaaagaaaaaaggactgataaaaa-tgaacacagtcttaatagacctttgtgttaatatagggaaatcaaac----agaaaaa--aattaagatcttaaaagaaaaggtatgtaaagtgcagataaaaaccaaacaaatatttgaagaaatattgtgttaaatttgttg-aaaaatattatc---------tt------------------tttttgtaaaacattttcttttagattttaaaagctaaacatttccaagt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160720990 372 - 185818997 aagattagaaacactc-----tagatataccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaagaatctgtaaattttagggtagattaatgaatattcctccctccaaaaggtaaagaaaaaaggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaattttaaaagaaaaggtgtgtaaagtgcagataaaaaccaaacaaatatttgaagaaatagtgtcttaactttggtg-aaaaatattatc---------ta------ttt---------tttttataaaacattatcttttagattttaaaagctaaacatttccaagt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167355665 372 - 192294377 aagattagaaacactc-----tagatataccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaagaatctgtaaattttagggtagattaatgaatattcctccctccaaaaggtaaagaaaaaaggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaatcttaaaagaaaaggtgtgtaaagtgcagataaaaaccaaacaaatatttgaagaaatagtgtcttaactttggtg-aaaaatattatc---------ta------ttt---------tttttataaaacattatcttttagattttaaaagctaaacatttccaagt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4991697 372 -  30496662 aagattagaaacactc-----tagatataccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaagaatctgtaaattttagggtagattaatgaatattcctccctccaaaaggtaaagaaaaaaggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaatcttaaaagaaaaggtgtgtaaagtgcagataaaaaccaaacaaatatttgaagaaatagtgtcttaactttggtg-aaaaatattatc---------ta------ttt---------tttttataaaacattatcttttagattttaaaagctaaacatttccaagt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13504296 373 +  21915920 aaaattagaaacactc-----tagatgtaccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaagaatctgtaaactttagggtagattaatgaatattcctccatccaaaagataaagaaaaaaggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaatctt-----aaaaggtgtataaagtgcaggtaaaaaccaaacaaatatttgaagaaatagtgtcttaaatttggtg-aaaaatattatc---------tactttttttt---------tttttataaaacattatcttttagattttaaaagtcaaacatttccaagt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20004991 374 -  90373283 aaaattagaaacactc-----tagatgtaccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaagaatctgtaaactttagggtagattaatgaatattcctccatgcaaaagataaagaaaaatggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaatcttaaaagaaaaggtgtgtaaagtgcagataaaaaccaaacaaatatttgaagaaatagtgtcttaaatttgttgaaaaaatattatc---------ta-----tttt---------tttaaataaaacattatcttttagattttaaaagctaaacatttccaagt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3512747 368 +   7543664 aaaattagaaacactc-----tagatgtaccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaagaatctgtaaactttagggtagattaatgaatattcctccatccaaaagatagagaaaaaaggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaatctt-----aaaaggtgtataaagtgcagataaaaaccaaacaaatatttgaagaaatagtgtcttaaatttggtg-aaaaatattatc---------ta-----TTTT---------TTTTTATAAAACATTATCTTTTAGATTTTAAAAGTCAAACATTTCCAAGT
i manLeu1.NW_012103476v1    C 0 M 4217
s colAng1.NW_012120598v1      5280746 372 -  13750039 aaaattagaaacactc-----tagatgtaccctcttaaaactgaaaaatttattgagtcatctcagtggtagtttagagatggcagataaaa-aatctgtaaactttagggtagattaatgaatattcctccatccaaaagataaagaaaaaaggactgatgaaaa-tgaacacagtcttaacagacctttgtgataatatagagaaatcaaacagaaacaaaaattaattaaaatcttaaaataaaaggtgtgtaaagtgcagataaaaactaaacaaatatttgaagaaatattgtcttaaatttggtg-aaaaatattatc---------ta-----tttc---------tttttataaaacattatcttttacattttaaaaggtaaacatttccaagt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26537346 246 +  50472720 AAAATTagaaacac---aactgaa------------aaaagtgaacatggtcttaacagacctttgtgataatataggaaaataaaacagaaa------------------------------------------caaaaattaattaaaatc-------ttaaaag-----------------------------------------------------------------------------aagaggtatgtaaaggacagataaaaaccaaacaaatattttaagaaatattatcttaaatttgttg-aaaaatatTCTC---------TT-----TTTT-ATTATATATTTTTGTAAAACATTATCTTTTAGATTTTGGTAGTTAAAAATTTCCAAGT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13960844 386 -  14377064 aaaattagaaacactctagttgaaaggtacactattaaaactgaaaaatgtattgtgtcatctcagttgtggtttagagatggcagacaaaagaatctggaaactgtaggttagattactgaatattcctccatccaaaagatagaaaagaac-aactgataaaaagtgaacatggtcttaacagacctttgtgataatataggaaaataaaacagaaacaaaaattaattaaaatcttaaac-aagaggtatgtatagggcatataaaaaccaaacaaatatttgaagaaatattatcttaaatttgttg-aaaaatattatc---------tt-----ttttaattatttatttttataaaacattatcttttagattttgatagttaaaaattttcaagt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9183683 395 -   9889416 aatattagaaacactctcattgaaaggtacactattaaaactgaaaaatgtattgtgtcatctcagttgtggtttagagatggcagacaaaagaatctggaaactgtaggttagattaatgaatattcctccatccaaaagatgaaaaaaaac-aactgataaaaagtgaacatgggcttaacagacctttgtgataatataggaaaataaaacagaaacaaaaattaattaaaatcttaaaagaagaggtatgcaaagggcagataaaaaccaaacaaatatttgaagaaatattatcttaaatttgttg-aaagatattatcttgtttttttt-----tttt-aatatttatttttgtaaaacattatcttttagattttggtagttaacaacttccaagt
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2429304 29736 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=2757542.000000
s hg38.chr21_GL383579v2_alt    142948 394 +    201197 gggataaacacaaaagagactaattctagtcccacat---aaaaatgatatttctagtgtatacaggggaaaaagacatatgacccttaagaagaaaactaaaaagcaaatattattagatgacttttcaacagtaacaatagtgatcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatctaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctaaaatatattgtattgggctca-----tttggcctacaagaagtgat-agttcttcaggctgaagcaaaatgacagtgacctcttgaatctacaggaatgaaaaaatgaag-acaaatgagtagcaaatatgtgggta
s panTro5.chr21               8761695 394 +  33445071 gggataaacactaaagagactaattctagtcccacat---aaaaatgatatttctagtgtatacaggggaaaaagacatatgacccttaagaagaaaactaaaaagcaaatattattagatgacttttcaacagtaacaatagtggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatctaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctaaaatatattgtattgggctca-----tttggcctacaagaagtgat-agttcttcaggctgaagcaaaatgacagtgacctcttgaatctacaggaatgaaaaaatgaag-acaaatgagtagcaaatatgtgggta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22300796 394 +  46275980 gggataaacactaaagagactaattctagtcccacat---aaaaatgatatttctagtgtatacaggggaaaaagacatatgacccttaagaagaaaactaaaaagcaaatattattagatgacttttcaacagtaacaatagtggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatctaatgaaactgtccat-gaaaaaggaaatatagaaatgttcacataagctaaaatatattgtattgggctca-----tttggcctacaagaagtgat-agttcttcaggctgaagcaaaatgacagtgacctcttgaatctacaggaatgaaaaaatgaag-acaaatgagtagcaaatatgtgggta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8283429 389 -  13858734 gggataaacacaaaagagactaattctagtcccacat---aaaaatgatatttctagtgtatacaggggaaaaagacatatgacccttaagaagaaaactaaaaagcaaatattattagatgacttttcaacagtaacaatagtggtcggatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatctaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctaaaa-----tgtattgggctca-----tttggcctacaagaagtgat-agttcttcaggctgaagcaaaatgacagtgacctcttgaatctacaggaatgaaaaaatgaag-acaaatgagtagcaaatatgtgggta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9307763 391 +  32716333 gggataaacac---agagactacttctagtcccacat---aaaaatgatatatttagtgtatacagaggaaaaagtcatatgacccttaagaagaaaactaaaaaacaaatattattagatgacttttcaacagtaacaatagaggtcacatgccattagaagagaacagccaaaatactgtgaggaaaaacaagctgtaaccaagaattgtgtatccaatgaaactgtccat-aaaaagggaaatatagaaatgttcacataagctaaaatatattgtactgggctca-----tttggcctgcaagaagtgat-agttcttcaggctgaagcaaaatgacagtgacctcttgaatctaaaggaatgaaaaaatgaag-acaaatgagtagcaaatatgtgggta
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160721362 384 - 185818997 gggataaacac----------atttctagtcccacat---aaaaatgatatttttagtgtagacagagg-aaaagacatatgaccctgaagaagaaaaatagaaagcaaagattattacatgacttttcaacagtagcaatagaggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatccaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctgaaagattttgtactgggctca-----tctggtctacaagaagtgat-agttcttcaggctgaagcaaaatgagggtgacctcttgaatctacaggaatgaaaaactgaagcgcaaatgagtagcaaatatgtgggta
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167356037 384 - 192294377 gggataaacac----------aTTTCTAGTCCCACAT---AAAAATGATATTTTTAGTgtagacagagg-aaaagacatatgaccctgaagaagaaaaatagaaagcaaagattattagatgacttttcaacagtagcaatagaggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatccaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctgaaagattttgtactgggctca-----tctggtctacaagaagtgat-agttcttcaggctgaagcaaaatgagggtgacctcttgaatctacaggaatgaaaaactgaagcgcaaatgagtagcaaatatgtgggta
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4992069 384 -  30496662 gggataaacac----------atttctagtcccacat---aaaaatgatatttttagtgtagacagagg-aaaagacatatgaccctgaagaagaaaaatagaaagcagagattattagatgacttttcaacagtagcaatagaggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatccaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctgaaagattttgtactgggctca-----tctggtctacaagaagtgat-agttcttcaggctgaagcaaaatgagggtgacctcttgaatctacaggaatgaaaaactgaagcgcaaatgagtagcaaatatgtgggta
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13504669 384 +  21915920 gggataaacac----------atttctagtcccacat---aaaaatgatatttttagtgtagacagagg-gaaagacatatgaccctgaagaagaaaaatagaaagcaaagattgttagatgacttttcaacagtagcaatagaggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatccaatgaaactgtccat-aaaaaaggaaatatagaaatgttcacataagctgaaagattttgtactgggctca-----tctgggctacaagaagtgat-agttcttcaggctgaagcaaaatgagggtgacctcttgaatctacaggaatgaaaaactgaagcgcaaatgagtggcaaatatgtgggta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20005365 388 -  90373283 gggataaacac----------atttctagttccacataaaaaaaatgatatttttagtgtagacagagg-aaaagacatatgaccctgaagaagaaaaatagaaagcaaagattattggatgacttttcaacagtagcaatagaggtcagatgccattagaagaaaatagccaaaatactgggaggaaaaacaagctgtagccaagaattctgtatccaatgaaattgtccataaaaaaaggaaatatagaaatgttcacataagctaaaagattttgtactgggctca-----tctagtctacaagaagtgat-agttcttcaagctgaagcaaaatgacagtgacctcttgaatctacaggaatgaaaaactgaagagcaaatgagtagcaaatatgtgggta
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5281118 389 -  13750039 tggataaacat----------gtttctagtcccacat---aaaaatgatatttttagtgtatacagagg-aaaagacatatgaccctgaagaagaaaaatagaaagcaaagattgttagatgacttttcaacaggagcaatagaggtcagatgccattagaagaaaatagccaaaatactgggaagaaaatcaagctgtagccaagaattctgtatccaatgaaactgtccat-taaaaaggaaatatagaaatgttcacataagctaaaagattttgtactgggctcatctggtctggtctacaagaagtgat-agttcttcaggctgaagcaaaatgacagtgacctcttgaatctacaggaatgaaaaactgaagagcaaatgagtagcaaatatgtggata
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26537592 393 +  50472720 GGAATAAACATGAAAGAGACCACTCCCGGTTCCACAT---AAAAATTATATTTTTAGTgtagtcaaggg-aaaggatatatggccctgcagaggaaaaataaaaaacaaagattattaaattacttttcaacagtaacaacagatgtagggtgccattagaagaaaaaagccaaaatactgggaggaaaggcaagctgtaaccaataattccgtatccaatgaaactgtccat--aaaaagaaaatatagaaatgttcagataagctgagatatattgtattgggcaca-----tctgatctgcaagaagtgat-acttctttaggctgaagcaaaatgacagtgacctcttgaatctacagaaatggaaaaatgaagagccaaggagtagcgaatatgtgggta
i calJac3.chr21             C 0 I 79
s cebCap1.NW_016107322v1     13961230 393 -  14377064 ggaataaatacgaaagagaccactcccagtaccacat---aaaaatgatatttttggtgtagaaatggg-aaaggatatatggccctgtagaagaaaaataaaaaacaaagattattaaatgacttttcaacagtaacaatagaggtagggtaccattagaagaaaaaagccaaaatacttggaggaaaagcaagctgtaaccaataattctgtatccaatgaaactgtccat--aaaaataaaatatagaaatgtttagataagctaagatatattgtattgggcaca-----tctggcctacaagaagtgat-acttctttgggctgaagcaaaatgacagtgacctcttgaatctacagaaatgaaaaaatgaagagcaaatgagtagcaaatatgtgggta
i cebCap1.NW_016107322v1    C 0 I 93
s aotNan1.NW_018487195v1      9184078 394 -   9889416 ggaataaacacgaaagagaccactcccagtcgcacat---aaaaatgatatttgtagtgtagacaaggg-aaaggatacatggctctgcagaagaaaaataaaaaacaaagattattaaatgacttttcaacagtaccaatagaggtaggatgccattagaagaaaaaagccaaaatactgggaggaaaagcaagctgtaaccaataattctgtatccaatgaaactgtccat--aaaaagaaaatgtagaaatgttcagataagctaagatatattgtattgggcaca-----tctggcctacaagaagcgataacttctttaggctgaagcgaaatgacagtgacctcttgaatctacagaaatgaaaaaatgaagagcaaatgagtagcaaatatgtgggta
i aotNan1.NW_018487195v1    C 0 I 93
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2429304 29736 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e manLeu1.NW_012103476v1      3513115 4217 +   7543664 M

a score=5287360.000000
s hg38.chr21_GL383579v2_alt    143342 1134 +    201197  
s panTro5.chr21               8762089 1146 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22301190 1146 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8283818 1146 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9308154 1149 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160721746 1149 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167356421 1148 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4992453 1148 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13505053 1151 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20005753 1147 -  90373283  
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5281507 1165 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2429304 29736 +   3081153 I
e cebCap1.NW_016107322v1     13961623   93 -  14377064 I
e canFam3.chr31              18070382  813 +  39895921 I
e aotNan1.NW_018487195v1      9184472   93 -   9889416 I
e calJac3.chr21              26537985   79 +  50472720 I
e saiBol1.JH378168            8715567  785 +  13128814 I
e otoGar3.GL873528           24900875  963 -  38779656 I
e manLeu1.NW_012103476v1      3513115 4217 +   7543664 M

a score=2045726.000000
s hg38.chr21_GL383579v2_alt    144476 376 +    201197 ggaattacaagatgaagtagcaaatagtatactaaatgataagaaaaactcaatgtat-aaacatttgtagaaaggtgc-aaaacattcataaatgtaaatatatgaattcaaatgcttacattaCAGGTTTTATGAAAAGAACAATAAAAAGTTCTAAAA--CTATCTAAATTGGTCACAAAAAAA-G-AAAAAATAGGATATTCATTTTTGGTAAAAATCCCAAAATACAAGGTATAAAAGGGAACTCCCTCAAGTACATATAGAATATAAAGTATATTTTTGGAGAGTAAATATTTAGAAAGtgatttgatttggctgtatccccacccaaatctcatcttgaattgtagttcccataatccccatgtgtcatgggagg
s panTro5.chr21               8763235 373 +  33445071 ggaattacaagatgaagtagaaaatagtatactaaatgataagaaaaactcaatgtat-aaaaatttgtagaaaggtgc-aaaacattcataaatgtaaatatatgaattcaaatgcttacattaCAGGTTTTATGAAAAGAACAAT---AAGTTCTAAAA--CTATCTAaattgatcacaaaaaaa-g-aaaaaataggatattcatttttggtaaaaatcccaaaatacaaggtataaaagggaactccctcaactacataaagaatatAAAGTATATTATTGGAGAGTAAATATTTAGAAAGtgatttgatttggctgtatccccacccaaatctcatcttgaattgtagttcccataatccccatgtgtcatgggagg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22302336 373 +  46275980 ggaattacaagatgaagtagaaaatagtatactaaatgataagaaaaactcaatgtat-aaaaatttgtagaaaggtgc-aaaacattcataaatgtaaatatatgaattcaaatgcttacattaCAGGTTTTATGAAAAGAACAAT---AAGTTCTAAAA--CTATCTAaattgatcacaaaaaaa-g-aaaaaataggatattcatttttggtaaaaatcccaaaatacaaggtataaaagggaactccctcaactacataaagaatatAAAGTATATTATTGGAGAGTAAATATTTAGAAAGtgatttgatttggctgtatccccacccaaatctcatcttgaattgtagttcccataatccccatgtgtcatgggagg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8284964 377 -  13858734 ggaattacaagacgaagtagaaaatagtatactaaatgataagaaaaactcaatgtataaaaaatttgtagaaaggtac-aaaacattcataaatgtaaatatatgaattcaaatgcttacattaCAGGTTTTATGAAAAGAACAATAAAAAGTTCTAAAA--CTATCTAaattgatcacaaaaaaa-g-gaaaaataggatattcatttttggtaaaaatcccaaaatacaaggtataaaagggaactccctcaactacataaagaatatAAAATATAGTATTGGAGAGTAAATATTTAGAAAGtgatttgatttggctatatccctacccaaatctcatcttgaattgtagttcccataatctccatgtgtcatgggagg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9309303 379 +  32716333 ggaattacaagacaaagtagaaaatagtatactaaatgataagaaaaactcaatgtat-aaaaatttctagaaaggtgcaaaaacaTTCATAAATGTAAATATATGAATTCAAATGCTTACATTACA-GTTTTATGAAAAGAACAATAAAAAATTATAAAACTCTATCTAAATTGATCACAAAAAAG-GAAAAAAATAGGATATTCGTTTTTGGTAAAAATCCCAAAATACAAGGTATAAAACGGAACTCCCTCAACTACATAAAGAATATAAAGTATATTATTGGAGAATAAATATTTAGAAAGtgatatgatctggctgtgtccccgcccaaatctcatcttgaattgtagttcccataatccccatgtgtcatgggagg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160722895 380 - 185818997 ggagttacaagacaaagtagaaaatagtatactaaatgataagaaaaattcaacgtat-aaaaatttgtagaaaggtgcaaaaacattcataaatgtaaatatatgaattcaaatgctcacattaCATGTTTTATGAAAAGAACAATAAAAAGTTATAAAACTCTATCTAAATTGATCGCAGAAAAGAA-AAAAAGTAGGATATTCATTTTTGGTAAAAATCCCAAAATACAAGTTAGAAAAGGGAACTCCCTCAACTGCATAAACAATATAAAGTATCTTATTGGAGAGTAAATATTTAGAAAGtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttccaataatccccacgtgtcatgggagg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167357569 380 - 192294377 ggagttacaagacaaagtagaaaatagtatactaaatgataagaaaaattcaacgtat-aaaaatttgtagaaaggtgcaaaaacattcataaatgtaaatatatgaattcaaatgctcacattaCATGTTTTATGAAAAGAACAATAAAAAGTTATAAAACTCTATCTAAATTGATCGCAGAAAAGAA-AAAAAGTAGGATATTCATTTTTGGTAAAAATCCCAAAATACAAGTTAGAAAAGGGAACTCCCTTAACTGCATAAACAATATAAAGTATCTTattggagagtaaatatttagaaagtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttccaataatccccacatgtcatgggagg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4993601 379 -  30496662 ggagttacaagacaaagtagaaaatagtatactaaatgataagaaaaattcaacatat-aaaaatttgtagaaaggtgcaaaaacattcataaatgtaaatatatgaattcaaatgctcacattaCATGTTTTATG-AAAGAACAATAAAAAGTTATAAAACTCTATCTAAATTGATCGCAGAAAAGAA-AAAAAGTAGGATATTCATTTTTGGTAAAAATCCCAAAATACAAGTTAGAAAAGGGAACTCCCTCAACTGCATAAACAATATAAAGTATCTTATTGGAGAGTAAATATTTAGAAAGtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttccaataatccccacgtgtcatgggagg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13506204 379 +  21915920 ggagttacaagacaaagtagaaaatagtatactaaatgataagaaaaattcaacgtat-aaaaatttgtagaaaggtgcaaaaacattcataaatgtaaatatatgaattcaaatgctcacattaCATGTTTTATGAAAAGAACAATAAAAAGTTATAAAACTCTATCTAAATTGATCGCAGAAAAG-A-AAAAAGTAAGATATTCATTTTTGGTAAAAATCCCAAAATACAAGGTAGAAAAGGGAACTCCCTCAACTGCATAAACAATATAAAGTATCTTATTGGAGAGCAAATATTTAGAAAGtgatatggtttggctctgtccccacccaaatctcatcttgaattgtagttttcataatccccatgtgtcatggcagg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20006900 380 -  90373283 ggagttacaagacaaagtagaaaatagtatactaaatgataagaaaaattcaacgtat-taaaatttgtggaaagttgcaaaaacattcataaatgtaaatatatgaattcaaatgctcacattaCATGTTTTATGAAAAGAACAATAAAAAGTTATAAAACTCTATCTAAATTGATCACGGAAAAGAA-AAAAAGTAGGATAATCATTTTTGGTAAAAATCCCAAAATATAAGGTAGAAAAGGGAACTCCCTCAACTGCATAAACAATATAAAGTATCTTattggagagtaaatatttagaaagtgatatggtttggctgtgtccccacccaaatctcatcttgaattgtagttccgataatccccatgtgtcatgggagg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3517332 379 +   7543664 GGAGTTACAAGACAAAGTAGAAAATAGTATACTAAATGATAAGAAAAATTCAACGTAT-AAAAATTTGTAGAAAGGTGCAAAAACATTCATAAATGTAAATATATGAATTCAAATGCTCACATTACATGTTTTATGAAAAGAACAATAAAAAGTTATAAAACTCTATCTAAATTGATCGCAGAAAAG-A-AAAAAGTAAGATATTCATTTTTGGTAAAAATCCCAAAATACAAGGTAGAAAAGGGAACTCCCTCAACTGCATAAACAATATAAAGTATCTTATTGGAGAGCAAATATTTAGAAAGtgatatggtttggctgtgtccccacccaaatctcatcttgaattgtagttttcataatccccatgtgtcatgggagg
i manLeu1.NW_012103476v1    M 4217 C 0
s colAng1.NW_012120598v1      5282672 377 -  13750039 ggagttacaagacaaagtagaaaatagtatactaaatgataagaaaaattcaacgtat-aaaaatttgtagaaaggtgcaaaaacattcataaatgtaaatatatgaattcaaatgctcacattacatattttatgaaaag---aataaaAAGTTATAAAACTCTATCTAAATTGATCACAGAAAAGAA-AAAAAGTAGGATATTCATTTTTGGTAAAAATGCCAAGATACAAGGTATAAAAGGGAACTCCCTCAACTACATAAACAATATAAAGTATCTTATTGGAGAGTAAATATTTAGAAAGtgatatggtttggctgtgtccccacccaaatctcatcttgagttgtagttcccataatccccgtgtgtcataggagg
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2429304 29736 +   3081153 I
e cebCap1.NW_016107322v1     13961623  93 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9184472  93 -   9889416 I
e calJac3.chr21              26537985  79 +  50472720 I
e saiBol1.JH378168            8715567 785 +  13128814 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=1694332.000000
s hg38.chr21_GL383579v2_alt    144852 209 +    201197 catctggtaagaggtaattgaatcatgggggcagttactctcatgctggcttcatgataatgagttctcatgagatctttttaaggggcctattcactctttcgctcagcacttct------tgctgccctgtgaacgaggccatgtttgcttccccttctgtcatgattgcaaatttcctgaggcctccccaggcctgcgggatggagacaatt
s panTro5.chr21               8763608 209 +  33445071 catctggtaagagataatttaatcatgggggcagttactctcatgctggcctcatgataatgagttctcatgagatctttttaaggggcttattcactctttcgctcagcacttct------tgctgccctgtgaacgaagccatgtgtgcttccccttctgtcatgattgcaaatttcctgaggcctccccaggcctgcgggatggagacaatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22302709 209 +  46275980 catctggtaagaggtaattgaatcatgggggcagttactctcatgctggcctcatgataatgagttctcatgagatctttttaaggggcctattcactctttccctcagcacttct------tgctgccctgtgaacgaggccatgtttgcttccccttctgtcatgattgcaaatttcctgaggcctccccaggcctgcgggatggagacaatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8285341 209 -  13858734 catctggtaagaggtgattgaatcatggggccagttactctcatgctggcctcatgataatgagttctcatgagatctttttaaggggcttattcactctttcgctcagcacttct------tgctgccctgtgaacgaggccatgtttgcttccccttctgtcatgattgcaaatttcctgaggccttcccaggcctgcgggatggagacaatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9309682 124 +  32716333 cacccggtaagaggtaattgaatcatgggg-cagttactctcatgctggtct------------------------------------------------------------------------------------------catgtttgcttccccttctgtcatgattgcaagtttcctgaggcctccccaggcctgcgggatggagacaatt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160723275 209 - 185818997 cacccagtaagaggtaattgaatcatgggggcagttactctcatgctgttctcatgaaaatgagttctcatgagatctttttaaggggcttattcactcctttgctcagcacttct------tgctaccctgtgaacgaggccatgttttctttcccttctgtcacgattgcaagtttcctgaggcctccccaggcctgcagaatggaggcaatt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167357949 209 - 192294377 cacccagtaagaggtaattgaatcatgggggcagttactctcatgctgttctcatgaaaatgagttatcatgagatctttttaaggggcttattcactcctttgctcagcacttct------tgctaccctgtgaacgaggccatgttttctttcccttctgtcacgattgcaagtttcctgaggcctccccaggcctgcagaatggaggcaatt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4993980 209 -  30496662 cacccagtaagaggtaattgaatcatgggggcagttactctcatgctgttctcatgaaaatgagttctcatgagatctttttaaggggcttattcactcctttgctcagcacttct------tgctaccctgtgaacgaggccatgttttctttcccttctgtcacgattgcaagtttcctgaggcctccccaggcctgcagaatggaggcaatt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13506583 209 +  21915920 cacccggtaagaggtaattgaatcatgggggcagttactctcatgctgttctcatgataaagagttctcacgagatctttttaaggggcttattcattccttcgctcagcacttct------tgctaccctatgaacgaggccatgttttcttccccttctgtcaggattgcaagtttcctgaggcctccccaggcctgcagaatggaggcaatt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20007280 209 -  90373283 cacccggtaagaggtaattgaatcattggggcagttactctcacgctgttctcatgattatgagttctcacgagatctttctaaggggcttattcactcctttgctcatcacttct------tgctaccctgtgaacgaggccatgttttcttccccttctgtcatgattgcaagtttcctgaggcctcccgaggcctgcagaatggagacaatt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3517711 209 +   7543664 cacccggtaagaggtaattgaatcatgggggcagttactctcatgctgttctcatgataaagagttctcacgagatctttttaaggggcttattcattccttcgctcagcacttct------tgctaccctatgaacgaggccatgttttcttccccttctgtcaggattgcaagtttcctgaggcctccccaggcctgcagaatggaggcaatt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5283049 209 -  13750039 cacctagtaagaggcaattgaatcatgggggcagtcattctcatgctattctcatgataatgagttctcaggagatctttttaaggggcttattcactccttcactcagcacttct------tgctgccctgtgaacgaggccatgtttccttccccttctgtcacgattgcaagtttcctgaggcctccccaggcctgcagaatggaggcagtt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26538064 212 +  50472720 Catctagtaagaggtagttgaatcatgggggcagttactcttatgctgttctcatgatagtgagttttcagaagatcttttaaaggggctttttcaccccttaattcagtatttctccttgctgcggccatgtgaa-gaga--acatttgcttccccttctgctatgattggaagtttcccaaggcctctcaagtactgcaaaactgagaaaatt
i calJac3.chr21             I 79 C 0
s saiBol1.JH378168            8716352 212 +  13128814 Catctagtaagaggtagttgaatcacgggtgcagttactctcatgctgttctcatgatagtgagttttcaggagatcttttaaaggggctttttcgccccttaattcagtatttctccttgctgccgccatgtgaa-gaga--acatttgcttccctttctgctgtgattacaagtttcccaagtcttctcaagttctgcagaactgagagaatt
i saiBol1.JH378168          I 785 C 0
s cebCap1.NW_016107322v1     13961716 212 -  14377064 Catctagtaagaggtagttgaatcctggggacagttactctcatgctgttctcatgatagtgagttttcaggagatcttttaaaggggctttttcgccccttagttcagtatttctccttgctgccaccatgtgaa-gagg--acatttgtttccccttctgctatgattgcaagtttccgaaggcctctcaagtcctgcagaactgagagaatt
i cebCap1.NW_016107322v1    I 93 C 0
s aotNan1.NW_018487195v1      9184565 212 -   9889416 Catctagtaagaggtggcggaatcatgggggcagttactctcatgctgttctcatgacactgagttttcaggagaacttttaaaggggctttttcaccccttaattcagtatttctccttgctgccgccatgtgaa-gagg--acgtttgcttccccttctgctatgatcgcaagtttcccaaggcctctcaagtcctgcagaactgagagaatt
i aotNan1.NW_018487195v1    I 93 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2429304 29736 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=2984672.000000
s hg38.chr21_GL383579v2_alt    145061 310 +    201197 aaatt-gttttc---cttt-ataaattatctagtgccgggtgtgtcattattagcagagtgaaaatggattaatacagaaagatatcccatgctagaggactggacgactcaaatttgttaagatgctctattttcccaaatacataaaaagatttaatgcaatctcattaaaaattccagcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcacatgacttagaatagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTT---ATACTATAAACAAGTAGAACTTAATT-------------AGTAATTTCCAAATA
s panTro5.chr21               8763817 310 +  33445071 aaatt-gttttc---cttt-ataaattatctagtgccgggtgtgtcattattagcagagtgaaaatggattaatacaTaaagatatcccatgctagaagactggacgactcaaatttgttaagatgctctattttcccaaatacataaaaagatttaatgcattctcattaaaaattccagcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcaaatgacttagaatagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTT---ATACTATAAACAAGTAGAACTTAATT-------------AGTAATTTCCAAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22302918 310 +  46275980 aaatt-gttttc---cttt-ataaattatctagtgccgggtgtgtcattcttagcagagtgaaaatggattaatacagaaagatatcccatgctagaggactggacgactcaaatttgttaagatgctctattttcccaaatacataaaaagatttaatgcaatctcattaaaaattccagcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcacatgacttagaatagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTT---ATACTATAAACAAGTAGAACTTAATT-------------AGTAATTTCCGAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8285550 310 -  13858734 aaatt-gttttc---cttt-ataaattatctagtgccaggtgtgtcattattagcagagtgaaaatggattaatacagaaagatatcccatgctagaagactggacaactcaaatttgttaagatgctctactttcccaaatacataaaaagatttaatgcaatctcattaaaaattccagcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcaaatgacgtagaatagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTT---ATACTATAAACAAGTAGAACTTAATT-------------AGTAATTTCCAAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9309806 313 +  32716333 aaatt-gttttc---cttt-ataaattatctagtcccggatatgtcattattagcagtgtgaaaatggattaatacggaaaggtatcccatgctagaagactggaagactcaaatttgttaagatgttctattttcccaaatacgtacaaagatttaatgcaatctcattaaaaattccagcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcaaatgacttagaatagg-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTTATAATACTACAAACAAGTAGAACTTAATT-------------AGTAATTTCCAACTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160723484 313 - 185818997 aaacc-tttttc---cttt-ataaagtatctagtcccgggtatgtcattattagcagcatgaaaacggattaatacagaaagatatcccatgctagaagactggaagactcaaataagttaagatgttctattttcccaaatacatacgaagatttaatgcaatctcattaaaaattcctgcaaaagttttcagacttggcaagatgattctgaaatttttagctaaattgcaaatgacttagaacagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTTATAATACTACAAACAAGTAGAACTTAATT-------------ACTAATTTCCAGATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358158 313 - 192294377 aaacc-tttttc---cttt-ataaagtatctagtcccgggtatgtcattattagcagcatgaaaacggattaatacagaaagatatcccatgctagaagactggaagactcaaataagttaagatgttctattttcccaaatacatacgaagatttaatgcaatctcattaaaaattcctgcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcaaatgacttagaacagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTTGTAATACTACAAACAAGTAGAACTTAATT-------------ACTAATTTCCAGATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4994189 313 -  30496662 aaacc-tttttc---cttt-ataaagtatctagtcccaggtatgtcattattagcagcatgaaaacggattaatacagaaagatatcccatgctagaagactggaagactcaaataagttaagatgttctattttcccaaatacatacgaagatttaatgcaatctcattaaaaattcctgcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcaaatgacttagaacagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTTATAATACTACAAACAAGTAGAACTTAATT-------------ACTAATTTCCAGATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13506792 310 +  21915920 aaacc-tttttc---cttt-ataaatgatctagtcccgggtatgtcagtattagcagcatg--aacgaatgaatacagaaagatatcccatgctagaagactggaagactcaaatttgttaagatgttctattttcccaaatacatacaaaaatttaatgcaatctcattaaaaattcctgcaaaagttttgagacttggcaagatgattccgaaatttttagctaaattgcaaatgacttaaaacagt-------------------------------------------------------------aagaATGTTTTTAAAATAATGTCTTGTAATACTACAAACAAGTAGAACTTAATT-------------AGTAATTTCCAGAT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20007489 313 -  90373283 aaacc-tttttc---cttt-ataaagtatctagtcccgggtatgtcattattagcagcatgaaaatggattaatacagaaagatatgccatgctagaagactggaagactcaaatttgttaagatgctctattttcccaaatacatacaaagatttaatgcaatctcattaaaaattcttgcaaaagttttgagacttggcaaaatgattccgaaatttttagctaaattgcaaatgacttagaacagt-------------------------------------------------------------aagaacgtttttaaaaTAAAGTCTTATAATACTACAAACAAGTAGAACTTAATT-------------ACTAATTTCCAGATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3517920 311 +   7543664 aaacc-tttttc---cttt-agaaattatctagtcctgggtatgtcagtattagcagcatg--aacgaatgaatacagaaagatatcccatgctagaagactggaagactcaaatttgttaagacgttctattttcccaaatacatacaaaaatttaatgcaatctcattaaaaattcctgcaaaagttttgagacttggcaagatgattctgaaatttttagctaaattgcaaatgacttaaaacagt-------------------------------------------------------------aagaatgtttttaaaataaagTCTTACAATACTACAAACAAGTAGAACTTAATT-------------AGTAATTTCCAGATA
i manLeu1.NW_012103476v1    C 0 I 8385
s colAng1.NW_012120598v1      5283258 314 -  13750039 aaacc-tttttc---ctttaataaattatctagtcccaagtatgtcattattagcagcatgaaaacggattaatatagaaagatatcccatgctagaagactggaagactcaaatttgttaagatgttctattttcccaaatacatacaaaaatttaatgcaatctcattaaaaattcctgcaaaagttttgagacttggcaagatgattccgaaatttttagttaaattgcaaatgacttagaacaat-------------------------------------------------------------aagaatgtttttaaaataaagTCTTATAATACTACAAACAAGTAGAACTTAATT-------------ACTAATTTCCAGATA
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26538276 308 +  50472720 aaaccttttttc---cttt-ataaattacccagtcccaggtatgtctttattaacagcatgaagacatattaatatggaaagatatctcatgcccgaagcatggaagacccaaatttattaagatgttctatttttcgacatacatacaaagatttaatataatttcaataaaaattccag-aaaagatttaagacttggcaagacgattctgaaatttttagctaaattgcaaatgacttaaaatagc-------------------------------------------------------------aagaATGTTTT-----TAAAGTTTTATAATACTATGACCAAGTAGAACTTAATT-------------AGTAATTTTCAGATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8716564 313 +  13128814 aaacc-tttttc---cttt-ataaattacccagtcccaggtatgtctttattaacagcatgaagacatattaatatggaaagatatctcatgcccaaagcctggaagacccaaatttgttaagatgttttattttcccacatacatacaaagatttaatataatctcaataaaaatttcagcaaaagatttgagacttggcaagatgattctgaaatttttacctaaattgcaaatgacttaaaatagc-------------------------------------------------------------aagaatgttttaaaaGTAAAGTCTTATAATACTACTAACAAGTAGAACTTAATT-------------AGTAATTTCCAGATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13961928 308 -  14377064 aaagc-tttttc---cttt-ataaattacccagtcccaggtatgtctttattaacagcgtgaagacatattaatatggaaagatatctcatgctcgaagcctggaagacccaaatttgttaagctgttctattttcccacattcatacaaagatttaatataatctcaataaaaattccagcaaaagatttgagacttggcaagatgagtctgaaatttttagataaattgcaaatgacttaaaatagc-------------------------------------------------------------aagaATGTTTT-----TAAAGTCTTATAATACTACGAACAAGTAGAATTTAATT-------------AGTAATTTCCAGATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9184777 311 -   9889416 aaacc-tttttc---attt-ataaattacccagtcccaggtatgtctttattaacagcatgaagacatattaatatggaaagatatctcatgcccgaagcctggaagacccaaatttgttaagatgttctattttcccacatacatacaaagatttaatataatctcaataaaaattccagcaaaagatttgagacttggcaagatgattctgaaa-ttttagctaaattgcaaatgacttaaaatagc-------------------------------------------------------------aagaATGTTTTTAAAGTAAAGTCTTATAATACTACGAACAAGTAGAACTTAATT-------------AGTAATTTCCAGAT-
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2459040 377 +   3081153 aaatt-atctacaaaccct-gtacattgaaaagtgcaaaatatggc------agaagcataagagtaaat------agaaagatattccatgttcaaatattggaagactcaaatttcttaagatgctttatttttccaaacatatcccaaagctcaatgtaatctcaataaaaatttcagaagatgttctataaattgtcaaggaaagtctaaaattttatattgaaatttagatggcttagggtagTTCAGGGGTTGGGTGCCTGGATGAAATCTCCCATATCTCCTAAAATAATGGCGTAGAATGCCAAAAACATTTTTAAAAGAAATAATTATAATGCCTCAAGAAAGTTTGACTTAATGTGTCACTTTGACAAGCAATTTCCAAAA-
i dasNov3.JH578070          I 29736 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=27997.000000
s hg38.chr21_GL383579v2_alt    145371 5 +    201197 GTTAA
s panTro5.chr21               8764127 5 +  33445071 GTTAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303228 5 +  46275980 GTTAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8285860 5 -  13858734 GTTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310119 5 +  32716333 GTTAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160723797 5 - 185818997 GTTAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358471 5 - 192294377 GTTAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4994502 5 -  30496662 GTTAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507102 1 +  21915920 ----A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20007802 5 -  90373283 GTTAA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5283573 4 -  13750039 TTTA-
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26538584 5 +  50472720 ATTAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8716877 5 +  13128814 GTTAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962236 5 -  14377064 GTTAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185088 1 -   9889416 ----A
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2459417 5 +   3081153 ATTAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I
e manLeu1.NW_012103476v1      3518231 8385 +   7543664 I

a score=1983604.000000
s hg38.chr21_GL383579v2_alt    145376 223 +    201197 CTTAAAACCTTAAAGTAGTATAATATTGAGTT-----------ATCGATA-------------ATTTAAATTTTGATAACATGACAA--TAATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAGTAACTTTAGGTTATATTAATATATGTGTTCTTATTTAAAGAAATGCAT----TAAACATTTTGGT-ATCAAA-TAATGAATATTTCTTATTTTTGGTTTGTTTAC
s panTro5.chr21               8764132 223 +  33445071 CTTAAAACCTTAAAGTAGTATAATATTGAGTT-----------ATCGATA-------------ATTTAAATTTTGATAACATGACAA--TAATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAGTAACTTTAGGTTATATTAATATATGTGTTCTTATTTAAAGAAATGCAT----TAAACATTTTGGT-ATCAAA-TAATGAATATTTCTTATTTTTTGTTTGTTTAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303233 221 +  46275980 CTTAAAACCTTAAAGTAGTATAATATTGAGTT-----------ATCGATA-------------ATTTAAATTTTGATAACATGACAA--TAATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAGTAACTTTAGGTTATATTA--ATATGTGTTCTTATTTAAAGAAATGCAT----TAAACATTTTGGT-ATCAAA-TAATGAATATTTCTTATTTTTTGTTTGTTTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8285865 223 -  13858734 CTTAAAACCTTGAAGTAGTACAATATTGAGTT-----------ATTGATA-------------ATTTAAATTTTGATAACATGACAA--TAATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAGTAACTTTAGGTTATATTAATATATGTGTTCTTATTTAAAGAAATGCAT----TAAACATTTTGGT-ATCAAA-TAATGAATATTTCTTATTTTTTGTTTGTTTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310124 227 +  32716333 CTTAAAACCTTAAAGTAATATAATATTGAGTT-----------ATTGATA-------------ATTTAAATTTTGATAACATGACAA--GAATTTTA-ATATATTTCTCGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAGTAACTTTAGGTTATATTAATCTATGTGTTCTTATTTAAAGAAATGCATTAAATAAACATTTTGGT-ATCAAA-TAATGAATATTTCTTATTTTTTGTTCGTTTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160723802 221 - 185818997 CTTAAAACCTTAAAGTAATATAATATTGAGTT--------------GATA-------------ATTTAAGTTTTGATAACATGAC-----AATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAATAACTTTACATTATATTAATATATGTGTTCTTATTTAAAGAAATGCATTAAATAAATACTTTGGT-ATCAAA-TAATGGACATTTCTTATTTTTTGTTTGTTTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358476 221 - 192294377 CTTAAAACCTTAAAGTAATATAATATTGAGTT--------------GATA-------------ATTTAAGTTTTGATAACATGAC-----AATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAATAACTTTACATTATATTAATATATGTGTTCTTATTTAAAGAAATGCATTAAATAAATACTTTGGT-ATCAAA-TAATGGACATTTCTTATTTTTTGTTTGTTTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4994507 221 -  30496662 CTTAAAACCTTAAAGTAATATAATATTGAGTT--------------GATA-------------ATTTAAGTTTTGATAACATGAC-----AATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAATAACTTTACATTATATTAATATATGTGTTCTTATTTAAAGAAATGCATTAAATAAATACTTTGGT-ATCAAA-TAATGGACATTTCTTATTTTTTGTTTGTTTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507103 219 +  21915920 CTTAAAACCTTAAAGTAATATAATATTGAGTT--------------GATA-------------ATTTAAGTTTTGATAACATGACAA--GAATTTTA-ATGTATTTCTAGTCCCATTTAATACATTTTACTACAGAAAATGGATGAATAAGTAACTTTAGTTTATATTAATATATGTATTCTTATTTAAAGAAATGCAT----TAAATACTTTGGT-ATCAAA-TAATAGACA-TTCTTATTTTTTGTTTGTTTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20007807 222 -  90373283 CTTAAAACCTTAAAGTAATATAATATTGAGTT--------------GATA-------------ATTT--GTTTTGATAACATGACAA--CAATTTTA-ATATATTTCTAGTCTCATTTAATACATTTTACTACAGAAAATGGATGTATAAGTAACTTTACGTTATATTAATATATGTGTTCTTATTTAAATAAATGCATTAAATAAATACTTTGGT-ATCAAA-TAATGGACATTTCTTATTTTTTGTTTGTTTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3526616 219 +   7543664 CTTAAAACCTTAAAGTAATATAATATTGAGTT--------------GATA-------------ATTTAAGTTTTGATAACATGACAA--GAATTTTA-ATGTATTTCTAGTCCCATTTAATACATTTTACTACAGAAAATGGATGAATAAGTAACTTTAGTTTATATTAATATATGTGTTCTTATTTAAAGAAATGCAT----CAAATACTTTGGT-ATCAAA-TAATAGACA-TTCTTATTTTTTGTTTGTTTAC
i manLeu1.NW_012103476v1    I 8385 C 0
s colAng1.NW_012120598v1      5283577 224 -  13750039 CTTAAAACCTTAAAGTAAGATAATATTGAGTT--------------GATA-------------ATTTAAGTTTTGATAACATGACAA--GAATTTTA-ATATATTTCTAGTCTCATTTAATATATTTTACTACAGAAAATGGATGAATAAGAAACTTTAGGTTATATTAATATATGTGTTCTTATTTAAAGAAATGCATTAAACAAATACTTTGGT-ATCAAA-TAATGGACATTTCTTATTTTTTGTTTGTTTAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26538589 222 +  50472720 GTTAAAACCTTAAAGTAATATAATATTGAGTT----------AACTGATA-------------ATTTACTTTTTGATAACATGACAA--GAATTTTATATATACTTCCAATCTCATTTAATACATTTTACTACAGAATGTGGGTGTATAAGTAACTTTAAGTTATATTAATATATGTGTTTTTATTT------ATTCATTAAATAAACATTTTAGT-ATGTAA-TAATTAGTATTTCTTATTTACTGTTT-CTTAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8716882 222 +  13128814 GTTAAAACCTTAAAGTAATATAATATTGAATT----------AATTGATA-------------ATTTACTATTTGATAACATGACAA--GAATTTTATACATACTTCCAGTCTCATTTAATACGTTTTACTACAGAATATGGATGTGTAAGTAACTTTAGGTTATATTAATGTATGTGTTTTTATTT------ATGCATTAAATAAATATTTTAGT-GTCTAA-TAATTAGTATTTTTTATTTGTTGTTT-TTTAC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962241 222 -  14377064 GTTAAAACCTTAAAGTAATATAACATTGAGTT----------AATTGATA-------------ATTTACTTTTTGATAACATGACAA--GAATTTTATATATACTTCCAGTCTCATTTAATACATTTTACTACAGAATATGGATGTATAAGAAACTTTAGGTTATATTAATGTATGTGTTTTTATTT------ATGCATTAAATAAACATTTTAGT-ATCTAA-TAATTAGTATTTCTTATTTATTGTTT-TTTAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185089 222 -   9889416 GTTAAAACCTTAAAGTAATACAATATTGAGTT----------AATCGATA-------------ATTTACTTTTTGATAACATGACAA--GAATTTTATATGTGCTTCCAGTCTCATTTAATACATTTTACTACAGAATATGGATGTATAAGTAACTTTAGGTTATATTAATGTATGTGTTTTTATTT------ATGCATTAAATAAACATTTTAGT-ATCTAA-TAATTAGTATTTCTTATTTATTGTTT-TTTAC
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2459422 234 +   3081153 ------TTTTTAAACTGCCATTATATTAAGGTTTAGAATATTTTTGGATACCTACACAATATCATTTATTTTTGAATATCAGTAAAATGTAATTTTC---ATAACTGTACTCTCATTTAATACATTATAGCATAATAAATGAATAAATAAATTGCTCTAGGTAGTGGTAATGTGTAAGTTCATCT---AAGAAATGTAAGAACGAA--ATTATGATAATCAAAGTAATGGATA--------TTTTTGTTTGTTTAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=1043184.000000
s hg38.chr21_GL383579v2_alt    145599 119 +    201197 Atgagtacaatgt--acaccatttgggccatcgttacccaaaaagcccagaattcatcactacacagtatatccatgtaacaaactgcatatatacctcttaaatttatacaaat--aaaaGA
s panTro5.chr21               8764355 118 +  33445071 Atgagtacaatgt--acaccatttgggccatcgttacccaaaaagcccagaattcatcactacacagtatatccatgtaacaaactgcatatatacctcttaaatttatacaaat--aaaa-a
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303454 119 +  46275980 Atgagtacaatgt--acaccatttgggccatcgttacccaaaaagcccagaattcatcactacacagtatatccatgtaacaaactgcatatatacctcttaaatttatacaaat--aaaaGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286088 121 -  13858734 Atgagtacaatgtacacaccatttgggccatcgttacccaaaaagcccagaattcatcattacacagtatatccatgtaacaaactgcatatatacctcttaaatttatacaaat--aaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310351 119 +  32716333 Atgggtacaatgt--acacagtttgggccatcgttacccgaaaagcccagaattcatcactacacagtatatccatgtaacaaactgcatacatactccttaaatttatacaaat--aaaaaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724023 118 - 185818997 Atgagtacagtgt--ataccatctgggccatagttaccc-aaaagcccagaattcatcaatacacagtatatccatataaaaaactgcacacgtaccccttaaatatatacaaat--aaaaaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358697 118 - 192294377 Atgagtacaatgt--ataccatctgggccatagttaccc-aaaagcccagaattcatcaatacacagtatatccatataaaaaactgcacacgtaccccttaaatatatacaaat--aaaaaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4994728 118 -  30496662 Atgagtacaatgt--ataccatctgggccatagttaccc-aaaagcccagaattcatcaatacacagtatatccatataaaaaactgcacacgtaccccttaaatatatacaaat--aaaaaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507322 119 +  21915920 Atgagtacaatgt--acaccatctgggccatagttacccaaaaagcccagaattcatcaatacacagtatatctatataaaaaactgcacacgtaccccttaaatatatacaaat--taaaaG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008029 119 -  90373283 Gtgagtacaatgt--acaccatctgggccatagttacccaaaaaccccagaattcatcaatacacagtatatccatataaaaaactgcacatgtaccccttaaatatatagaaat--aaaaaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3526835 119 +   7543664 Atgagtacaatgt--acaccatctgggccatagttacccaaaaagcccagaattcatcaatacacagtatatctatataaaaaactgcacacgtaccccttaaatatatacaaat--taaaaG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5283801 119 -  13750039 Atgagtacaatgt--acaccatctgggtcatagttacccaaaaagcccagaattcatcaatacacagtatatctatataaaaaactgcacacgtaccccttaaatatatacaaat--taaaaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26538811 120 +  50472720 AAGCAtacaatgt--acacgatttgggtcatagttacccaaaaagcctagactttatcactacacagcatatccatat-acaaactgtacacataccccttaaatgtatacaaataaaaaaaA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717104 118 +  13128814 AAGCAtacaatgt--acaccatttgggtcatagttacccaaaaagcctagactttatcactacacagtatatccatgt-ataaactgtacacatatcccttaagtttatacaaat--ataaaa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962463 118 -  14377064 AAGCAtacaatgt--acaccatttggatcatagttacccaaaaagcctagactttatcactacacagtatatccgtgt-acaaactatacacatactccttaaatttatacaact--aaaaaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185311 118 -   9889416 AAGCAtacaatgt--acacgatttgggtcatagttacccaaaaagcctagactttatcactacacagtatatccatgt-acaaactgtacacataccccttaaatttatacaaat--aaaaaa
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2459656   0 +   3081153 C
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=911258.000000
s hg38.chr21_GL383579v2_alt    145718 85 +    201197 GAAAAATAATG-AAAAAATTATGTTCCTGAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
s panTro5.chr21               8764473 85 +  33445071 GAAAAATAATG-AAAAAATTATGTTCCTGAAAGTATGAGATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303573 85 +  46275980 GAAAAATAATG-AAAAAATTATGTTCCTGAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286209 85 -  13858734 GAAAAATAATG-AAAAAATTATGTTCCTGAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310470 83 +  32716333 GAAAAATAATG-AAAAAATTATGTTCCTGAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAA--AAGACATTAAAATATATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724141 85 - 185818997 GAAAAATAATG-AAAAAATTATGTTCCTTAAAGTTTGAAGTGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358815 85 - 192294377 GAAAAATAATG-AAAAAATTATGTTCCTTAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4994846 85 -  30496662 GAAAAATAATG-AAAAAATTATGTTCCTTAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507441 84 +  21915920 GAAAAATAATG--AAAAATTATGTTCCTTAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008148 85 -  90373283 GAAAAATAATG-AAAAAATTATGTTCCTTAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3526954 85 +   7543664 GAAAAATAATG-AAAAAATTATGTTCCTTAAAGTATGAAATGTCTTCATTGTTCAAGAATATGAAAGAAGACATTAAAATATATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5283920 85 -  13750039 GAAAAACAATG-AAAAAATTATGTTCCTTAAAATATGAAATGTCTTCATTGTTCAAGAATATGAAGGAAGACATTAAAATATATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26538931 85 +  50472720 GAAAAATAATG-AAAAAAATATGTTTTCTGAAGTATGAAATGTCATCATTGTTCAAGAACAAGAAAGAAGACATTAAAATATATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717222 85 +  13128814 GAAAAATAATG-AAAAAATTATGTTTCCTGAAGTATGAAATGTCATCGTTGTTCAAGAACATGAAAGAAGACATTAAAATATATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962581 86 -  14377064 GAAAAATAATGAAAAAAATTATGTTTCCTGAAGTACGAAATGTCATAATTGTTCAAGAAAATGAAAGAAGACATTAAAATATATtt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185429 85 -   9889416 GAAAAATAATG-AAAAAATTATGTTTCCTGAAGTATGAAATGTCATCATTGTTCGAGAACATGAAAGAAGACATTAAAATATATTT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2459656 84 +   3081153 TAAGAAAAATA-AGAAAATTAT-TTTCATGGAGTGAGAAATGCCTTCATTGTTATAGATTATGAAAGAAGACATTATAAGACATTT
i dasNov3.JH578070          C 0 I 8177
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=873524.000000
s hg38.chr21_GL383579v2_alt    145803 95 +    201197 TgctagttaatgggtacaataatggagttggatagaataagttctggtattccatggcacaataggAAAGTGTGTTCTAAATCAAACCACAGATT
s panTro5.chr21               8764558 95 +  33445071 TgctagttaatggatacaataatggagttggatagaataagttctggtattccgtggcacaataggAAAGTGTGTTCTAAATCAAACTACAGATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303658 95 +  46275980 TgctagttaatgggtacaataatggagttggatagaataagttctggtattccatggcacaataggAAAGTGTGTTCTAAATGAAACCACAGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286294 95 -  13858734 TTCtagttaatgggtacaataatggagttggatagaataagttctagtattccatggcacaataggAAAGTGTGTTCTAAATCAAACCACAGATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310553 95 +  32716333 TgctagttaatgggtacaataatggagctggatagaataagttctagtattccatggtacaataggAAAGTGTGTTCTGAATCAAACCACAGATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724226 95 - 185818997 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358900 95 - 192294377 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4994931 95 -  30496662 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507525 95 +  21915920 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008233 95 -  90373283 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527039 95 +   7543664 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284005 95 -  13750039 TgttagttaatgggtgcaaaaatggagttgaatagagtaagttctagtattccatggtacaatagggAAGTGTGTTCTAAATCAAACCACAGATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539016 95 +  50472720 TgttagttaatgggtacaaagatggagttggatagaataagttctagaatttcatgatacaatagggAAGCATATTCTAGATCAAACCACAGATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717307 94 +  13128814 TGTTAGTTAATGAGTACATGGAGGGATTTGGATAGAATAAGTTCTAGAATTCCATGGTACAATAGGGAAGTGTATT-TAAATCAAACCACAGATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962667 90 -  14377064 t----gttaataggtacaaagatggagttggatagaataagttc-agaattccatggtacaatagggAAATGTATTCTAAATCAAACCACAGATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185514 77 -   9889416 TGTTAGTTAA------------------TGGATAGAATAAGTTCTAGAATTCCATGGTACAATAGGGAAGGGTATTCTAAATCAAACCATAGATA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e dasNov3.JH578070            2459740 8177 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=980507.000000
s hg38.chr21_GL383579v2_alt    145898 108 +    201197 ATCTAACAGTACAGCAATTTTCC-----TAAAGATTGCAACTCCCATCCATCAACAGCACTTAAGGATTGCCTAGCGTTTCTCCATAAGCATTCTCATTTACTGCAGAAAGTT
s panTro5.chr21               8764653 108 +  33445071 ATCTAACAGTACAGCAATTTTCC-----TAAAGATTGCAACTCCCATCCATCAACAGCACTTAAGGATTGCCTAGCGTTTCTCCATCAGCATTCCCATTTACCTCAGAAAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303753 108 +  46275980 ATCTAACAGTACAGCAATTTTCC-----TAAAGATTGCAACTCCCATCCATCAACAGCACTTAAGGATTGCCTAGCGTTTCTCCATCAGCATTCCCATTTACCTCAGAAAGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286389 108 -  13858734 ATCTAACAGTAGAGCAATTTTCC-----TAAAGATTGCAACTCCCATCCATCAACAGCACTTAAGGATTGCCTAGCGTTTCTCCATCAGCATTCTCATTTACCGCAGAAAGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310648 108 +  32716333 ATCTAACAGTACAGCAATTTTCC-----TAAAGATTGCAACTCCCATCCATCAACAGCACTTAAGGATTGCCTAGCGTTTCTCCATTAGCATTCTCGTTTACTGCAAAAAGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724321 107 - 185818997 ATCAGACA-TACAGCAATTTGCC-----TAAAGATTGAAACCCCCATCCATCAACAGCCCTTAAGGATTGCCTAGCATTTCTCCATTAGCATTCTCATTTACTGCCAAAAGCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167358995 107 - 192294377 ATCAGACA-TACAGCAATTTGCC-----TAAAGATTGAAACCCCCATCCATCAACAGCCCTTAAGGATTGCCTAGCATTTCTCCATTAGCATTCTCATTTACTGCCAAAAGCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995026 107 -  30496662 ATCAGACA-TACAGCAATTTGCC-----TAAAGATTGAAACCCCCATCCATCAACAGCCCTTAAGGATTGCCTAGCATTTCTCCATTAGCATTCTCATTTACTGCCAAAAGCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507620 108 +  21915920 ATCAGACAGTACAGCAATTTGCC-----TAAAGATTGAAACCCCCATCCATCAACAGCCCTTAAGGATTGCCTAGCATTTCTCCATTAGCATTCTCATTTACTGCAAAAAGCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008328 107 -  90373283 ATCAGACA-TACAGCAATTTGCC-----TAAAGATTGAAACCCCCATCCATCAACAGTCCTTAAGGATTGCCTAGCATTTCTCCATTAGCATTCTCATTTACTGCAAAAAGCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527134 108 +   7543664 ATCAGACAGTACAGCAATTTGCC-----TAAAGATTGAAACCCCCATCCATCAACAGCCCTTAAGGATTGCCTAGCATTTCTCCATTAGCATTCTCATTTACTGCAAAAAGCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284100 106 -  13750039 ATC--ACAGTACAGCAATTTGCC-----TAAAGATTGCAGTCCCCATCCATCAACAGCCCTTAAGGATTGCCTAGCATTTCTCCGTTAGCATTCTCATTTACTGCACAAAGTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539111 108 +  50472720 ATCTGATAGTACAGCAATTTGCC-----TAAAGTTTGGAATTTCCATCCATCAACAGCCCTTAAGGTTTGCCTAGAGTTTCTCCAATGGCTGTCTCATTCACTGCAATAAGTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717401 108 +  13128814 ATCTGAGAGAACAGCAATTTGCC-----TAAAGATTGGAATTCCCATCCATCAACAGCCCTTAAGGGTTGCCTAGAGTTTCTCCACTGAATGTCTCATTCACTGCAATAAGTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962757 108 -  14377064 ATCTGACAGTACAGCAATTTGCC-----TAAAGACTGGAATTCCCATCCATCAACAGCCCTTAAGGGTTGCCTAGAGTTTCTCCACTGGTTGTCCCATTCACTGCAATATATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185591 108 -   9889416 ACCTGACAGTACAGCAATTTGCC-----TAAAGATTGGGATTCCCATCCATCAACAGCCCTTAAGGGTTGCCTAGAGTTTCTCCACTGGCTGTCTCATTCACTGCAGTAAGTT
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2467917 112 +   3081153 ATCTCACCTTACATCAGTTTACCTGGTTTAAAGAATAAATCAACCATCCTCCAA-ATCTTTTGGAGGTGCCCCAGAGATTGTCATAGAACATTCTCTACTGCTGCAGGAAATT
i dasNov3.JH578070          I 8177 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24900875 963 -  38779656 I

a score=427677.000000
s hg38.chr21_GL383579v2_alt    146006 47 +    201197 CAGTTATCCAATTGCAAGTAAACCAAATATA-ATTTAAT---AGTATAGGA
s panTro5.chr21               8764761 47 +  33445071 CAGTTATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303861 47 +  46275980 CAGTTATCCAATTGCAAGTAACCCAAATATA-ATTTGAT---AGTATAGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286497 47 -  13858734 CAGTTATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310756 47 +  32716333 CAGTTATCCAGTTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724428 47 - 185818997 CATTAATCCAATTGCAAGTAACCCAAATATA-GTTTAAT---AGTATAGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359102 47 - 192294377 CATTAATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995133 47 -  30496662 CATTAATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507728 47 +  21915920 CATTAATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008435 47 -  90373283 CATTAATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527242 47 +   7543664 CATTAATCCAATTGCAAGTAACCCAAATATA-ATTTAAT---AGTATAGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284206 47 -  13750039 CATTAATCCAATTGCAAATAACCCAAAAATA-ATTTAAC---AGTATAGGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539219 46 +  50472720 CAGTAATCCAATTGCAAGTAACCCAAATATA-ATTTAA----AGCATAGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717509 46 +  13128814 CAGTAATCCAATTGCAAGTAACTCAAATATA-ATTTAA----AGTATAGGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962865 46 -  14377064 CAGTAATCCAACAGCAAGTAACTCAAATATG-ACTTAA----AGTATAGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185699 46 -   9889416 CAGTAATCCAATTGCTAGTAACCCAAATATA-ATTTAA----AGTATAGGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24901838 42 -  38779656 CAGTAAGCCCATTG-AAGTAAC-CAAATATG-CAGTAATTCAAGT------
i otoGar3.GL873528          I 963 C 0
s dasNov3.JH578070            2468029 39 +   3081153 CAATAAACCAATTACT-----CTCAAGTGTATGTCCCAT---GGCCT----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23730971 3516 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=4761282.000000
s hg38.chr21_GL383579v2_alt    146053 386 +    201197 ATGTTTCTAGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGATATATA-AACCAATATTTAACAGTTACATTTTTATTGAAAAGGAAG--CCGCGCTGGTTAAATTTGACTTTCACTTTATGCTTAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGGCTTTTCAGAAAGATCATCCTTTCTTTGTTCTTTCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTATTGCTGAAAAACTCCGACTCAGAGAAAATGTCA--CAGGTA-TTT-------T-----TTTTT---TAAATAGCTGTTGCAGTTTAAGCTTTCAGAA
s panTro5.chr21               8764808 386 +  33445071 ATGTTTCTAGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTTATATATA-AACCAATATTTAACAGTTACATTTTTATTGAAAAGGAAGCCCCCCGCTGGTTAAATTTGACTTTCACTTTATGCTTAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTTTATTTGAGATTAGACCTAAGGCTTTTCAGAAAGATCATCCTTTCTTTGTTCTTTCCCCTAAGGTAAACTATT----TCCATTGTCATAGCACTGACAAATAATTATTTTATTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTA---T-------T-----TTTTT---TAAATACCTGTTGCAGTTTAAGCTTTCAGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22303908 384 +  46275980 ATGTTTCTAGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGATATATA-AACCAATATTTAACAGTTACATTTTTATTGAAAAGGAAG--CCCCGCTGGTTAAATTTGACTTTCACTTTATGCTTAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTTTATTTGAGATAAGACCTAAGGCTTTTCAGAAAGATCATCCTTTCTTTGTTCTTTCCCCTAAGGTAAACCATT----TCCATCGTCATAGCACTGACAAATAATTATTTTATTGCCGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTA---C-------T-----TTTTT---TAAATAGCTGTTGCAGTTTAAGCTTTCAGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286544 383 -  13858734 ATGTTTCTAGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGATATATA-AACCAATATTTAACAGTTACATTTTTATTGAAAAGGAAG--CCGCGCTGGTTAAATTTGACTTTCACTTTATGCTTAGATTTCACACAATGATGTGCTTTGAGGAAACAA-GGTATATTTGAGATCAGTCCTAAGGCTTTTCAGAAAGATCATCCTTTCTTTGTTCTTTCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTT-TTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTA--TT-------T-----TTTTT---TAAATAGCTGTTGCAGTTTAAGCTTTCAGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9310803 383 +  32716333 ATGTTTCTAGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AGGCTTAACTCAGCAATCAACAAGAATAACATTGATATATA-AACCAATATTTAACAGTTACATTTTTATTGAAAAGGAAG--CCACGCTGGTTAAATTTGACTTTCACTTTATGCTTAGATTTCACACAATGAAGTGCTTTGAGGAAACAAGGGTGTATTTGAGATTGGTCCTAAGGCTTTTCAGAAAGATCATCCTTTCTTTGTTCTTTCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTATTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--TAGGTA-----------T-----TTTTT---CTAATAGCTGTTGCAGTTTAAGCTTTCAGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724475 384 - 185818997 ATGCTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTTAGCAATCAACAGGAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCACTCTGGTTAAATTTGACTTTCACTTTATGCTCAGATTTCACACAATGATATGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTTTCAGAAGGATCATCCTTTCTTTGTTCTTCCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTACTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---TAAATAACTGTTGCAGTTTAAGCTTTCAGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359149 384 - 192294377 ATGCTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTTAGCAATCAACAGGAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCACTCTGGTTAAATTTGACTTTCACTTTATGCTCAGATTTCACACAATGATATGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTTTCAGAAGGATCATCCTTTCTTTGTTCTTCCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTACTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---AAAATAACTGTTGCAGTTTAAGCTTTCAGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995180 384 -  30496662 ATGCTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTTAGCAATCAACAGGAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCACTCTGGTTAAATTTGACTTTCACTTTATGCTCAGATTTCACACAATGATATGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTTTCAGAAGGATCATCCTTTCTTTGTTCTTCCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTACTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---TAAATAACTGTTGCACTTTAAGCTTTCAGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13507775 384 +  21915920 ATGCTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCACACTGGTTAAATTTGACTTTCACTTTATGCTCAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTTTCAGAAGGATCATCCTTTCTTTGTTCTTCCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTACTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---TAAATAACTGTTGCAGTTTAAGCTTTCAGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008482 384 -  90373283 ATGCTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCACACTGGTTAAATTTGACTTCCACTTTATGCTCAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTTTCAGAAGGATCATCCTTTCTTTGTTCTTCCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTACTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---TAAATAACTGTTGCCGTTTAAGCTTTCAGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527289 384 +   7543664 ATGCTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCACACTGGTTAAATTTGACTTTCACTTTATGCTCAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTTTCAGAAGGATCATCCTTTCTTTGTTCTTCCCCTTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTACTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---TAAATAACTGTTGCAGTTTAAGCTTTCAGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284253 383 -  13750039 ATATTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTGA-AAGCTTAATTCAGCAATCAACAGAAATAACATTGACATATA-AACCAATATTTCACAGTTACATTTTTATTGAAAAGGAAG--CCCCACTGGTTAAATTTTACTTTCACTTTATGCTCAGATTTCACACAATGATGTGCTTTGAGGAAACAAGGGTATATTTGAGATTAGTCCTAAGACTTCTCAGAAAGATCATCCTTTCTTTGTT-TTCCCCCTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAAATAATTATTTTATTGCTGAAAAACTCTGACTCAGAGAAAATGTCA--CAGGTG---C-------T-----TTTTT---TAAATAACTGTTGCAGTTTAAGCTTTCAGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539265 386 +  50472720 GTGTTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTTA-AAGCTTAACTCAGCAATCGACAGGAATAACACTGATGTATA-AACCAACATTTACTAGTTACATTTTTATTGAACAGGAAG--CCGCACTGGTTAAATTTGACTTTCACTTTATGTGTAGATTTTATACAATGATATGCTTTGAGGGAACAAGAGTATATTTGTAATTAGTCCTAAGGCTTTTCAAAAAGATTATCCTTTCTTTGTTCTT-CCCTAAAGGTAAACCATT----TCCATTGTCATAGGACTGATAAATAATTATTTTATTGCTGGAAAACTCTGACTCACAGAAAATATTA--CAAGTATTTC-------T-----TTTTT---TTAATAACCACTGCAGTTTAAGTTTTCAGAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717555 389 +  13128814 GTGTTTCTGGTGATCTTTGGCTTTTTATGTTAATCAACTAAATTTTA-AATTTTAACTCAGCAATCAACAGGAATCACATTGATATATA-AACCAACATTTGCTAGTAACATTTTTATTGAAAAGGAAG--CCACACTGGTTAAATTTGACTTTAACTTTATGCTTAGATTTTATACCATGATATGCTTTGAGGGAACAAGGGTATATTTGTAATTAGTCTTAAGGCTTTTCAAAAAGATTATCCTTTCTTTATGCTT-CCCTTAAGGTAAACCATT----TCCATTGTCATAGCACTGACAGATAATTATTTTATTGCTGAAAAACTCTGACTCACAGAAAATATTA--CAAGTATTTC-------T-----TTTTTAAAAAAATAACCATTGCAGTTTAAGCTTTCAGAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13962911 391 -  14377064 ATGTTTCTGGTGGTCTTTGGCTTTTTATGTTAATCAACTAAATTTTA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGATATATA-AACCAACATTTACTAGTTACATTTTTATTGAAAAGGAAG--CCACACTGGTTAAATTTG------ACTTTATGCTTAGATTTTATACGATGATATGCTTTGAGGGAACAAGGCTATATTTGTAGTTAGTCTTAAGGCTTTTCAAAAAGATTATCCTTTCTTCGTTCTT-CCCTTAAGGTAAACCATTTCCATCCATTGTCATAGCATTGACAAATAATTATTTTATTGCTGAAAAACTCTGACTCACAGAAAATATCA--CAAGTATTTCTTTTCTTT-----TTTTT---TTAATAACCATTGCAGTTTAAGCTTTCAGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9185745 391 -   9889416 GAGTTTCTGGTGGTCTTTGGTTTTTTATATTAATCAACCAAATTTTA-AAGCTTAACTCAGCAATCAACAGGAATAACATTGATATATA-AACCAACATTTACTAGTTACATTTTTATTAAAAAGGAAG--CCACAGTGGTTGAATTTGACTTTCACTTTATGCTTAGATTTTACACAATGATATGCTTTGAGGGAAGAAGGATATACTTGTAATCAGTCCTAAGGCTTTTCAAAAAGACTATCTTTTCTTTGTTCTT-CCCTTAAGGTAAACCATT----TCCATTGTCATAGCACTGGCAAATAATTATTTTATTGCTGAAAAACTCTGACTCACAGAAAATATTA--CAAGTATTTC--TTTTTT-----TTTTT---TTAATAACCATTGTAGTGTAAGCTTTCAGAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23734487 382 +  47401472 ATGTTTCTGATGATCTTTGGCTTTATATGTTATTCAACTAAATTTGA-AAACTCAACTCAGCAATCAATAGGAATAGTATCAATATATAGAACCAATATTTGATCGTTACATTTTTATTGAAAAGAAAG--ACACACTGGTTAAATTTGACTTCC-CTTTATGTTTAGCTTTCACACAATGATGTGCTTTGAAG-AACAAAGTTATCTTTAAGATTAGTCATAAGACTTTTCAAATAGATAATCCTTTCTTTGCTCTTTCCCCTAGGATAAACCATT----TTCATTGTCATTGTACTGACAGATAATTATTTTATTGCTG-AAAACCATGACTCAGATAAAGTGTCA--CAGGTA---A-------T-----TTTTT---AAAAAAACTGTTGCAATTTGAGCTTTCATAA
i micMur3.chr31             I 3516 C 0
s otoGar3.GL873528           24901880 375 -  38779656 ATGTTTCTGATGATCTTTGGCTTTATATGTTATTCAATTAAATTTGA-AAGCTAAACTCAGCAGTCAACA-GAATAGTATCTGTATGTG------------CATAGTTACATTTTTATTGAAAAGAAAG--CCACTCTGGTTAAATTTTTCTTTC-CCTGACATTTAGATTTCACACAATGGTGTGCTTTGAGGTAACAAACTTATCTTTAAGATTAGTCATAAGGCTTTTCAAACAGAAAATCCTTTCTTTGCTCTTTTATGTAAGGTAAACTACT----TCCATTGTCATAGTACTGACAGATAATTATTTTATTGCTG-AAAATCCTGACTCAGAGAAAATGTCA--CAAGta---a-------tttttattttt---taaataaCTGTTGAAGTTTAAACTTTCAGAA
i otoGar3.GL873528          C 0 I 311
s dasNov3.JH578070            2468068 364 +   3081153 ---TTTTTAATGTACTTTAA-----TATGATAATCAATTAAATTTGATAAGCTTAAAGC-TCAATCAAATGGAATATCATTGATTTAAAGGACCACTATTTCATAGTGACATTTGTATTGGA-AGGAAG--CCATCCAAATAAAAGCTGACTTTCACTTTAAGTTCAGATTTCA-ACAAAGATGTTCTGTGAGGTAACAAGGATAGCTTCACGATTAGTCATAAGGATAGTCAAGAAGACAATCCTTTGTT-----TTTACCCTATGATAAATTATT----TTCATTGTCATAGAACTGATAGATAATTACTTTATCTCTG-AAAACCCTGACTCAGAGTAAATGTCACTCAGGTA---A-------A-----TTTTG----------CTGTTGCAGTTTAAGCTTTCTGAA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=416523.000000
s hg38.chr21_GL383579v2_alt    146439 40 +    201197 ATTGCT---ATATAAAACCTGTCATTTAGGGGGAAAATAAAAT--
s panTro5.chr21               8765194 40 +  33445071 ATTGCT---ATATAAAACCTGTCATTTAGGGGGAAAATAAAAT--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304292 40 +  46275980 ATTGCT---ATATAAAACCTGTCATTTAGGGGGAAAATAAAAT--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286927 40 -  13858734 ATTGCT---ATATAAAACCTGTCATTTAGGGGGAAAATAAAAT--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311186 41 +  32716333 ATTGCTA--ATATAAAACCTGTCATTTAGGGGGAAAATAAAAT--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724859 41 - 185818997 ATTGCTA--ATATAAAAACTGTCATTTAGGGGGAAAAGAGAAT--
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359533 41 - 192294377 ATTGCTA--ATATAAAAACTGTCATTTAGGGGGAAAAGAGAAT--
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995564 41 -  30496662 ATTGCTA--ATATAAAAACTGTCATTTAGGGGGAAAAGAGAAT--
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508159 41 +  21915920 ATTGCTA--ATATAAAAACTGTCATTTAGGGGGAAAAGAGAAT--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008866 41 -  90373283 ATTGCTA--ATATAAAAGCTGTCATTTAGGGGGAAAAAAGAAT--
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527673 41 +   7543664 ATTGCTA--ATATAAAAACTGTCATTTAGGGGGAAAAGAGAAT--
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284636 40 -  13750039 ATTGCTA--ATATAAAAGCTGTCATTTA-GGGGAAAAGAAAAT--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539651 41 +  50472720 ACTTCTC--ATATAAAACCTGTCATTTAGGAGGAAAATAAAAT--
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717944 41 +  13128814 ATCGCTC--ATGTAAAACTTGTCATTTAGAAAGAAAATAAAAT--
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963302 41 -  14377064 ATTGCTC--ATATAAAACCTGTCATTTACGGGGAAAATAAAAT--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186136 41 -   9889416 ATTGCTC--ATATGAAACCTGTCATTTAGGGGGAAAATAAAAT--
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23734869 41 +  47401472 ACTGCTG--ATACATAACCTGTCATTTGGGGGAAGAATAAAAT--
i micMur3.chr31             C 0 I 148
s dasNov3.JH578070            2468432 45 +   3081153 AATGCTGATATATAAAACTTGCCATTTGAAGGAAAATGAAACTAC
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902255 311 -  38779656 I

a score=336438.000000
s hg38.chr21_GL383579v2_alt    146479 37 +    201197 TTTCT---GTAAA---AACAATTCAAAAAAATGTAATTATTCC-
s panTro5.chr21               8765234 37 +  33445071 TTTCT---GTAAA---AACAATTCAAAAAAATGTAATTATTCC-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304332 37 +  46275980 TTTCT---GTAAA---AACAATTCAAAAAAATGTAATTATTCC-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8286967 37 -  13858734 TCTCT---GTAAA---AACAATTCAAAAAAATGTAATTATTCC-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311227 36 +  32716333 TTTCT---GTAAA---AGCAATTC-GAAAAATGTAATTATTCC-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724900 36 - 185818997 TTTCT---GTAAA---AGCAATTT-TAAAAATGTAATTATTCC-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359574 36 - 192294377 TTTCT---GTAAA---AGCAATTT-AAAAAATGTAATTATTCC-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995605 36 -  30496662 TTTCT---GTAAA---AGCAATTT-AAAAAATGTAATTATTCC-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508200 36 +  21915920 TTTCT---GTAAA---AGCAATTT-AAAAAATGTAATTATTCC-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008907 36 -  90373283 TTTCT---GTAAA---AGCAATTT-AAAAAATGTAATTATTCC-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527714 36 +   7543664 TTTCT---GTAAA---AGCAATTT-AAAAAATGTAATTATTCC-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284676 36 -  13750039 TTTCT---GTAAA---AGCAATTT-AAAAAATGTAATTATTCC-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539692 36 +  50472720 TTTCT---GAAAA---AGCAATTT-GAAAAATTTAATTATTCC-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8717985 36 +  13128814 CTTCC---GAAAA---AGCAATTT-GAAAAATTTAATTATTCC-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963343 36 -  14377064 TTTCT---GGAAA---AGCAATTT-GAAAAATTTAATTATTCC-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186177 36 -   9889416 TTTCT---GAAAA---AGCAATTT-GAAAAATTTAATTATTCC-
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2468477 44 +   3081153 TTTCTACCGAAAAGTTAGCACTTCTATAAAATGAAATTATTTTC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23734910 148 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902255 311 -  38779656 I

a score=1199195.000000
s hg38.chr21_GL383579v2_alt    146516 123 +    201197 TGTGTTCATAAAACTTCATAGTAGTGATGAACAAT-GAAAAATATTCATTCTTTC--TTAAGGTATCAAGTAGTCACAAATTTTA-TTTTTCATTTAAGAATTGATTAACTT--CATTTTTCACTAATG----
s panTro5.chr21               8765271 119 +  33445071 TGTGTTCATAAAACTTCATAGTAGTGATGAACAAT-GAAAAATATTCATTCTTTC--TTAAGGTATCAAGTAGTCACAAAT-----TTTTTCATTTAAGAATTGATTAACTT--CATTTTTCCCTAATG----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304369 119 +  46275980 TGTGTTCATAAAACTTCATAGTAGTGATGAACAAT-GAAAAATATTCATTCTTTC--TTAAGGTATCAAGTAGTCACAAAT-----TTTTTCATTTAAGAATTGATTAACTT--CATTTTTCCCTAATG----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287004 123 -  13858734 TGTGTTCATAAAACTTCATAGTAGTGATGAACAAT-GAAAAATATTCATTCTTTC--TTAAGGTATCAAGTAGTCACAAATTTTA-TTTTTCATTTAAGAATTGATTAACTT--CATTTTTCCCTAATG----
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311263 124 +  32716333 TGTGTTCGTGAAACTTCACAGTAGTGATGAACAAT-AAAAAGTATTCATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTAGTTTTTCATTTAAGAGTTGATTAACTT--CATTTTTCCCTAATG----
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160724936 123 - 185818997 TATGTTCATAAAACTTCACAGTAGT-ATGAACAAT-ACAAAATATCAATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTATTTTTGTGTTTGAGAATTGATTAACTT--CATTTTTCCCTAATG----
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359610 123 - 192294377 TATGTTCATAAAACTTCACAGTAGT-ATGAACAAT-ACAAAATATCAATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTATTTTTGTGTTTGAGAATTGATTAACTT--CATTTTTCCCTAATG----
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995641 123 -  30496662 TATGTTCATAAAACTTCACAGTAGT-ATGAACAAT-ACAAAATATCAATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTATTTTTGTGTTTGAGAATTGATTAACTT--CATTTTTCCCTAATG----
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508236 123 +  21915920 TATGTTCATAAAACTTCACAGTAGT-ATGAACAAT-ACAAAATATCAATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTATTTTTGTGTTTGAGAATTGATTAACTT--CATTTTTCCCTAATG----
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20008943 123 -  90373283 TATGTCCATAAAACTTCACAGTAGT-ATGAACAAT-ACAAAATATCAATTCTTTC--CTAAGGTACCAAGTAGTCACAAATTTTATTTTTGCGTTTGAGAATTGATTAACTT--CATTTTTCCCTAATG----
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527750 123 +   7543664 TATGTTCATAAAACTTCACAGGAGT-ATGAACAAT-ACAAAATATCAATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTATTTTTGTGTTTGAGAATTGATTAACTT--CATTTTTCCCTAATG----
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284712 123 -  13750039 TATATTCATAAAACTTCACAGTAGT-ATTAACAAT-ACAAAATATCAATTCTTTC--TTAAGGTACCAAGTAGTCACAAATTTTATTTTTGCATTTAAGAATTGATTAACTT--CATTTTTCCCTAATG----
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539728 125 +  50472720 TGTGTTCATAAAACTGCACAGTAGTGATGAATAATAAAAAAATAGCCATTCTTTC--TTAAGATACCACATAGTCACAAATTATATTTTGGCATTTACGAGTAGATTAACTT--CATTTTTCCCTAGTG----
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718021 122 +  13128814 TATATTCATAAAACTGCACAGTAGTGATGAACAAT-AAAAAATAGCCATTATTTC--TTAAGATACCAC--AGTCACAAATTATATTTTTGCATTTAAGAATAGATTAACTT--CCTTTTTCCCTAGTG----
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963379 124 -  14377064 TATGTTCATAAAACTGCACAGGAGTGATGAACAAT-AAAAAATAGCCATTCTTTC--TTAAGATACCACATAGTCACAAATTATATTTTTGCATTTAAGAATAGATTAACTT--CACTTTTCCCTAGTG----
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186213 124 -   9889416 TATGTTCATAAAAATGCACAGTAGTGATGAACAAT-AAAAAATAGCCATTCTTTC--TTAAGATATCACATAGTCACAAATTATATTTTTGCATTTAAGAATAGATTATCTT--CATTTTTCCCTAGCG----
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902566 120 -  38779656 CATGTTCATAAAACTTCACAGTAGTAATGAATGTT-AAAAAAAATCTATTTTTTT--CTTAAGTACCAAATAGTCACATACTTTA-TTTAGAATTTAAGAATAGATCAACTT-----TTTTCCTCAGTT----
i otoGar3.GL873528          I 311 C 0
s dasNov3.JH578070            2468521 127 +   3081153 TGAATTCTTAAAAGTTTGTAAT-GTGATGAACAAT----AACCCTGAATCCACTCATTTAAGGTATGAAATAAACACaaattttaattttgaa-ttaagaatatattgatttatatctttttatttatGAATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23734910 148 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=512661.000000
s hg38.chr21_GL383579v2_alt    146639 41 +    201197 AATTGGGATATATA-------------------GTGTGTATGTGTGCCTTGAAGCTGCAA
s panTro5.chr21               8765390 41 +  33445071 AATTGGGATATATA-------------------GTGTGTATGTGTGCCTTGAAGCTGCAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304488 41 +  46275980 AATTGGGATATATA-------------------GTGTGTATGTGTGCCTTGAAGCTGCAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287127 41 -  13858734 AATTGGGATATATA-------------------GTGTGTATGTGTGCCTTGAAGCTGCAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311387 41 +  32716333 AATTGGGATATATA-------------------GTGTGTATGTGTGCCTTGAAGCTGCAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725059 41 - 185818997 AATTGGGATATATA-------------------GTGTGTATGCGTGCCTTGAAGCTGCAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359733 41 - 192294377 AATTGGGATATATA-------------------GTGTGTATGCGTGCCTTGAAGCTGCAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995764 41 -  30496662 AATTGGGATATATA-------------------GTGTGTATGCGTGCCTTGAAGCTGCAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508359 41 +  21915920 AATTGGGATATATA-------------------GTGTGTATGCATGCCTTGAAGCTGCAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009066 41 -  90373283 AATTGGGATATATA-------------------GTGTGTATGCGTGCCTTGAAGCTGCAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3527873 41 +   7543664 AATTGGGATATATA-------------------GTGTGTATGCGTGCCTTGAAGCTGCAA
i manLeu1.NW_012103476v1    C 0 I 317
s colAng1.NW_012120598v1      5284835 41 -  13750039 AATTGGGATATATA-------------------GTGTGTATGCGTGCCTTGAAACTGCAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539853 41 +  50472720 AATTGGGATATATA-------------------GTGTGTATGTGCACCTTGAAGGTGCAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718143 41 +  13128814 AATTGGGATATACA-------------------GTGTGTATGTGTGCCTTGAAGGTGCAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963503 41 -  14377064 AATTGGGATATATA-------------------CTGTGTATGTGTGCCTTGCAGGTGCAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186337 41 -   9889416 AATTGGGATATATA-------------------GTGTGTATGTGTGCCTTGAAGGTGCAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735058 41 +  47401472 AATTGGAATGTATA-------------------GTGTATATGTGTGCCTTGAAGCTGCAA
i micMur3.chr31             I 148 C 0
s otoGar3.GL873528           24902686 39 -  38779656 AATT-GAGTGTAGA-------------------GTATATG-GTGTGCCTGGAAGGTGCAA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2468648 60 +   3081153 AACTGAGGTATATGCATTAACAATTAATAATATATGCATTTGTGTTTATTGAGACTATAT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=72600.000000
s hg38.chr21_GL383579v2_alt    146680 7 +    201197 GTTGGCT
s panTro5.chr21               8765431 7 +  33445071 GTTGGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304529 7 +  46275980 GTTGGCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287168 7 -  13858734 GTTGGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311428 7 +  32716333 GTTGGCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725100 7 - 185818997 GTTTGCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359774 7 - 192294377 GTTTGCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995805 7 -  30496662 GTTTGCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508400 7 +  21915920 GTTTGCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009107 7 -  90373283 GTTTGCT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5284876 7 -  13750039 GTTTGCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539894 7 +  50472720 GTTTGCC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718184 7 +  13128814 GTTTGCC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963544 7 -  14377064 GTTTGCC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186378 7 -   9889416 GTTTGCC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735099 7 +  47401472 GTTTGCT
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24902725 7 -  38779656 GTTTGCA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2468708 7 +   3081153 GTTTTTT
i dasNov3.JH578070          C 0 I 2805
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3527914 317 +   7543664 I

a score=132380.000000
s hg38.chr21_GL383579v2_alt    146687 14 +    201197 TTTTT-ATTCGCTTT
s panTro5.chr21               8765438 14 +  33445071 TTTTT-ATTCGCTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304536 14 +  46275980 TTTTT-ATTCGCTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287175 14 -  13858734 TTTTA-ATTTGCTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311435 14 +  32716333 TTTTT-ATTCGCTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725107 15 - 185818997 TTTTTAATTCGCTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167359781 15 - 192294377 TTTTTAATTCGCTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4995812 15 -  30496662 TTTTTAATTCGCTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508407 15 +  21915920 TTTTTAATTCGCTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009114 15 -  90373283 TTTTTAATTCGCTTT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5284883 15 -  13750039 TTTTTAATTCGCTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539901 14 +  50472720 TTTTT-ATTCACTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718191 14 +  13128814 TTTTT-ATTCACTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963551 14 -  14377064 TTTTT-ATTCACTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186385 14 -   9889416 TTTTT-ATTCACTTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735106 14 +  47401472 TTTCT-GTTTGCTTT
i micMur3.chr31             C 0 I 99
s otoGar3.GL873528           24902732 14 -  38779656 TTTCT-GTTAGCGTT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2471520 14 +   3081153 Ttttc-atttgattt
i dasNov3.JH578070          I 2805 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3527914 317 +   7543664 I

a score=203575.000000
s hg38.chr21_GL383579v2_alt    146701 39 +    201197 TGGCTAAAA--TTTAAATCTGACCAATTTTGAATTTTAAAT
s panTro5.chr21               8765452 39 +  33445071 AGGCTAAAA--TTTAAATCTGACCAATTTTGAATTTTAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304550 39 +  46275980 TGGCtaaaa--tttaaatctgaccaattttgaattttaaat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287189 39 -  13858734 TGGCtgaaa--tttaaatctgaccaattttgaattttaaat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311449 39 +  32716333 TGGCtaaaa--tttaaatctgaccaattttaaattttaaat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725122 39 - 185818997 TGGCTAaaa--tttaaatatgaccaattttgaattttaaat
i rheMac8.chr3              C 0 I 326
s macFas5.chr3              167359796 39 - 192294377 TGGCTAaaa--tttaaatatgaccaattttgaattttaaat
i macFas5.chr3              C 0 I 317
s macNem1.NW_012015021v1      4995827 39 -  30496662 TGGCTAaaa--tttaaatatgaccaattttgaattttaaat
i macNem1.NW_012015021v1    C 0 I 329
s cerAty1.NW_012002954v1     13508422 39 +  21915920 TGGCTAAAA--TTTAAATATGACCAATTTTGAATTTTAAAT
i cerAty1.NW_012002954v1    C 0 I 315
s chlSab2.chr2               20009129 39 -  90373283 TGGCTAaaa--tttaaatatgaccaattttgaattttaaat
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5284898 39 -  13750039 CAGCTAAAA--TTTAAACATGACCAATTTTGAATTTTAAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539915 18 +  50472720 TGGCTAAAA-TTTTAAATC----------------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718205 18 +  13128814 TGGCTAAAA-TTTTAAATC----------------------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963565 33 -  14377064 TGGCTAAAA-TTTTGAATCTGACCAGTTTTTAAT-------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186399 33 -   9889416 TGGCTAAAA-TTTTAAATCTGACAAATTTTAATT-------
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902746 28 -  38779656 TGGCTAAAT--TTT---------CAGATTTCAGTGTAAC--
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2471534 18 +   3081153 tgcctggaaattttaaac-----------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735120 99 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3527914 317 +   7543664 I

a score=63896.000000
s hg38.chr21_GL383579v2_alt    146740  7 +    201197 TTGACCA-----
s panTro5.chr21               8765491  7 +  33445071 TTGACCA-----
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304589  7 +  46275980 tttaCCA-----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287228  7 -  13858734 ttgaCCA-----
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311488  7 +  32716333 ttGACCA-----
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725487  7 - 185818997 TTGACCA-----
i rheMac8.chr3              I 326 C 0
s macFas5.chr3              167360152  7 - 192294377 TTGACCA-----
i macFas5.chr3              I 317 C 0
s macNem1.NW_012015021v1      4996195  7 -  30496662 TTGACCA-----
i macNem1.NW_012015021v1    I 329 C 0
s cerAty1.NW_012002954v1     13508776  7 +  21915920 TTGACCA-----
i cerAty1.NW_012002954v1    I 315 C 0
s chlSab2.chr2               20009168  7 -  90373283 ttgaCCA-----
i chlSab2.chr2              C 0 I 317
s manLeu1.NW_012103476v1      3528231  7 +   7543664 TTGACCA-----
i manLeu1.NW_012103476v1    I 317 C 0
s colAng1.NW_012120598v1      5284937  7 -  13750039 TTGACCA-----
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26539933  6 +  50472720 -TGACCA-----
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718223  6 +  13128814 -TGACCA-----
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963598  7 -  14377064 TTGACCA-----
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186432  6 -   9889416 -TGACCA-----
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902774  6 -  38779656 -TGCACA-----
i otoGar3.GL873528          C 0 I 1
s dasNov3.JH578070            2471552 11 +   3081153 -tcaacgtgtaa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735120 99 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=44517.000000
s hg38.chr21_GL383579v2_alt    146747 4 +    201197 ATTA
s panTro5.chr21               8765498 4 +  33445071 GTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304596 4 +  46275980 GTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287235 4 -  13858734 ATTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311495 4 +  32716333 ATTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725494 4 - 185818997 ATTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360159 4 - 192294377 ATTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996202 4 -  30496662 ATTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508783 4 +  21915920 ATTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009492 4 -  90373283 ATTA
i chlSab2.chr2              I 317 C 0
s manLeu1.NW_012103476v1      3528238 4 +   7543664 ATTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5284944 4 -  13750039 ATTA
i colAng1.NW_012120598v1    C 0 I 315
s calJac3.chr21              26539939 4 +  50472720 ATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718229 4 +  13128814 ATTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963605 4 -  14377064 ATTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186438 4 -   9889416 ATTA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902781 4 -  38779656 ACTA
i otoGar3.GL873528          I 1 C 0
s dasNov3.JH578070            2471563 4 +   3081153 gtta
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735120 99 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=929170.000000
s hg38.chr21_GL383579v2_alt    146751  98 +    201197 TCACAAACTGA-TCAGTTGTCTTGTTTTTGTAAATATCTACATTGGATTATTTCAATATGAAAATATTTAAAGTAGACTGAGGAGTTTCTGTATT-----------ATAG
s panTro5.chr21               8765502  98 +  33445071 TCACAAACTGA-TCAGTTGTCTTGTTTTTGTAAATATCTACATTGGATTATTTCAATATGAAAATATTTAAAGTAGACTGAGGAGTTTCTGTATT-----------ACAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304600  98 +  46275980 TCACAAACTGA-TCAGTTGTCTTGTTTTTGTAAATATCTACATTGGATTATTTCAATATGAAAATATTTAAAGTAGACTGAGGAGTTTCTGTATT-----------ATAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287239  98 -  13858734 TCACAAACTGA-TCAGTTGTCTTGTTTTTGTAAATATCTACATTGTATTATTTCAATATGAAAATATTTAAAGTAGACTGAGGAGTTTCTGTATT-----------ATAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311499  98 +  32716333 TCACAGACTGA-TCAGTTGTCTTGCTTTGGTAAATATCTACATTGGATTATTTCAATATGAAAATATTTAAAGTAGACTGAGGAGTTTCTATATT-----------ATAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725498  97 - 185818997 TCACAAACTGA-TCAGTTGTATTG-TTTGGTAGATATCTACATTGGATTATTTTAATATGAATATATTTAAAGTAGCTCGAGGAGTTTCTGTATT-----------ATAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360163  97 - 192294377 TCACAAACTGA-TCAGTTGTATTG-TTTGGTAGATATCTACATTGGATTATTTTAATATGAATATATTTAAAGTAGCTCGAGGAGTTTCTGTATT-----------ATAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996206  97 -  30496662 TCACAAACTGA-TCAGTTGTATTG-TTTGGTAGATATCTACATTGGATTATTTTAATATGAATATATTTAAAGTAGCTCGAGGAGTTTCTGTATT-----------ATAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508787  97 +  21915920 TCACAAACTGA-TCAGTTGTATTG-TTTGGTAGATATCTACATTGGATTATTGTAATATGAATATATTTAAAGTAGCTCGAGGAGTTTCTGTATT-----------ACAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009496  97 -  90373283 TCACAAACTGA-TCAGTTGTATTG-TTTGGTAGATATCTACATTGGATTATTTTAATATGAATGTATTTAAAGTAGCTCGAGGAGTTTCTGTATT-----------ATAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528242  97 +   7543664 TCACAAACTGA-TCAGTTGTATTG-TTCGGTAGATATCTACATTAGATTATTTTAATATGAATGTATTTAAAGTAGCTCGAGGAGTTTCTGTATT-----------ATAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285263  97 -  13750039 TCACAAACTAA-TCAGTTGTATTG-TTTGGTAGACATATACGTTGGATTATTTTAATATGAATATATTTAAAGTAGCTCAAAGAGTTTCTGTATT-----------ATAG
i colAng1.NW_012120598v1    I 315 C 0
s calJac3.chr21              26539943  97 +  50472720 TCACAAACTGA-TAAGTAGTCTTG-TTTGGTAAATACGTACGTTGGATTATTTTAATATGAACATGTTTATAGTGACTGGAGCAGTTTTAACATT-----------ACTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718233 108 +  13128814 TCACAAACTAA-TAAGTCGTCTCG-TTTGGTAAATATGTACATTGGATTATTTTAATATGAACATGTTTAAAGTAGCCTGAGCAGTTTTAACATTAGGTCTTTAACATAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963609  97 -  14377064 TAACAAACTGA-TAAGTAGTCTTG-TTTGGTAAATATGTACATTGGATTATTTTAATATGAACATGTTTCAAGTAGCCTGAGCAGTTTTAACATT-----------ACAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186442  97 -   9889416 TCACAAACTGT-TAAGTAGTCTTG-TTTAGTAAATATGTACATTGGATTATTTTAATATGAATATGTTTAAAGTAGCCTGAGCAGTTTTAACATT-----------ATAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902785  96 -  38779656 TCACAAACTGATTCAGAAGGCTTG-TTTAGTAAATATTCAC--TGGAGTGTTTTAACATGGAAACACTAAAGGTAGCTTGAACAATTTCTGTTTC-----------ATAT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2471567  83 +   3081153 ccacaaaataa-tcagaagccctg-tttggcGAATACTTTCACTGAATTGTTTCAA---------------AATAGCTTGAAGAGTTGCTACATT----------CATGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735120  99 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=888845.000000
s hg38.chr21_GL383579v2_alt    146849 75 +    201197 ATCTTTAGGGTTCTGGAAACCCATCTTGCAATTGAGATTACAGAAACTCTCCATTGTATTAACTTATGTAAATCT
s panTro5.chr21               8765600 75 +  33445071 ATCTTTAGGGTTCTGGAAACCCATCTTGCAATTGAGATTACAGAAACTCTCCATTGTATTAACTTATGTAAATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304698 75 +  46275980 ATCTTTAGGGTTCTGGAAACCCATCTTGCAATTGAGATTACAGAAACTCTCCATTGTATTAACTTATGTAAATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287337 75 -  13858734 ATCTTTAGGGTTCTGGAAACCCATCTTGCAATTGAGATTACAGAAACTCTCCATTGTATTAACTTATGTAAATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311597 75 +  32716333 ACCTTTAGGGTTCTGGAAACCCATCTTGCAATTGAGATTACAGAAACTCTCCATTGTATTAACTTATGTAAATCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725595 75 - 185818997 ATCTTAAGAGTTCTGGAAACCCATCTTGAAATTGAGATTACAGAAATTCTCTATTTTATTAACTTATGTAAAGCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360260 75 - 192294377 ATCTTAAGAGTTCTGGAAACCCATCTTGAAATTGAGATTACAGAAATTCTCTATTTTATTAACTTATGTAAAGCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996303 75 -  30496662 ATCTTAAGAGTTCTGGAAACCCATCTTGAAATTGGGATTACAGAAATTCTTTATTTTATTAACTTATGTAAAGCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508884 75 +  21915920 ATCTTAAGAGTTCTGGAAACCCATCTTGAAATTGAGATTACAGAAATTCTCTATTTTATTAACTTATGTAAAGCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009593 75 -  90373283 ATCTTAAGAGTTCTGGAAACCCATCTTGAAATTGAGATTACAGAAATTCTCTATTTTATTAACTTATGTAAAGCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528339 75 +   7543664 ATCTTAAGAGTTCTGGAAACCCATCTTGAAATTGAGATTACAGAAATTCTCTATTTTATTAACTTATGTAAAGCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285360 75 -  13750039 ATCTCCAGGGTTCTGGAAACCCATCTTGCAATTGAGATTACAGAAGCTCTCTATTTTATTAACTTATGTAAAGCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540040 75 +  50472720 GTCTTTAAGGTTCTGAAAACCCATCTTGCAATCAAGATTACAGAAACTCTCTATTTTATTAACTTATGTAAATCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718341 75 +  13128814 GTCTTTAGGGTTCTGGAAACCCATCTTGCAATCAAGATTACAGAAACTCTCCATTTTATTAACTTGTGTAAATCG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963706 75 -  14377064 GTCTTTTGGGTTCTGAAAACCCATCTTGCAATCAAGATTACAGAAACTCTCTATTTTATTAACTTATGTAAATCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186539 75 -   9889416 GTCTTTAGGGTTCTGGAAACCCATCTTGCAATCAAGATTACAGAAACTCTCTATTTTATTAACTTATGTAAATCT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735219 74 +  47401472 ATCTCTAGGATCCTGGAAACCCATTTTGAAATTGA-ATTACAGAAACTTTCCATTTTATTAAGTTATATAAATCT
i micMur3.chr31             I 99 I 182
s otoGar3.GL873528           24902881 72 -  38779656 ATCTCTGGGAACCTGGAAATCCATTTTGGAATTGT-ATTATAGAAAC--TCAATTTTATTAAGTCATGTAGATTT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2471650 68 +   3081153 CTCTCAAGCATTATGGAAACCCATTTTGAAAT-GAGAATCCACACATTCTTT------TCAAAATATTTAAAATT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=278093.000000
s hg38.chr21_GL383579v2_alt    146924 28 +    201197 GTTATAAACATC-TTTTGTTGATGACAAT
s panTro5.chr21               8765675 28 +  33445071 GTTATAAACATC-TTTTGTTGATGACAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304773 28 +  46275980 GTTATAAACATC-TTTTGTTGATGACAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287412 28 -  13858734 GTTATAAACATC-TTTTGTTGATGACAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311672 28 +  32716333 GTTATAAACATC-TTTTGTTGATGACAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725670 28 - 185818997 GTTATAAACATC-TTTTGTTTATAATGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360335 28 - 192294377 GTTATAAACATC-TTTTGTTTATAATGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996378 28 -  30496662 GTTATAAACATC-TTTTGTTTATAATGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508959 28 +  21915920 GTTATAAACATC-TTTTGTTGATAATGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009668 28 -  90373283 GTTATAAACATC-TTTTGTTGATAATGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528414 28 +   7543664 GTTATAAACATC-TTTTGTTGATAATGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285435 28 -  13750039 GTTATAAACATC-TTTTGTTGATGATGAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540115 28 +  50472720 GTTATAAACATC-TTTTGTTAATCATGAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718416 28 +  13128814 GTTATAAACATC-TTTTGTTAATCATGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963781 27 -  14377064 GTTATAAACATC-TTTTGTTAATCATGA-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186614 28 -   9889416 GTTATAAACATC-TTTTCTTAATCATGAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902953 27 -  38779656 GCTATAGTAAGT-TTTTATTG-TGATAAT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2471718 29 +   3081153 GTGATGATCATTATTCTGATCATGGTAAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735293 182 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1603629.000000
s hg38.chr21_GL383579v2_alt    146952 151 +    201197 ATTATGACT----GTCTCTCACATTTACTAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCATGTGATGCCAAA-ATCAATGAGAATGTATGTAATTACAACCTTAATTCAATGGAAATTTATCTAATGATCCGTTATGACAAACAG
s panTro5.chr21               8765703 151 +  33445071 ATTATGACT----GTCTCTCACATTTACTAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCACGTGATGCTAAA-ATCAATGAGAATGTATGTAATTACAACCTTAATTCAATGGAAATTTATCTAATGATCCGTTATGACAAACAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304801 151 +  46275980 ATTATGACT----CTCTCTCACATTTACTAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCACGTGATGCTAAA-ATCAATGAGAATGTATGTAATTACAACCTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAAACAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287440 151 -  13858734 ATTATGACT----GTCTCTCACATTTACTAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCATGTGATGCTAAA-ATCAGTGAGAATGTATGTAATTACAACCTTAATTCAATGGAAATTTATCTAATGATCCGTTATGACAAACAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9311700 151 +  32716333 ATTATGACT----GTCTCTCACACTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGATGCTAAA-ATCAATGAGAATGTATGTAATTACAAACTCAATTCAGTGGAAATTTATCTAATGATCCATTATGACAACCAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725698 151 - 185818997 ATTTTGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACACTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAACCAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360363 151 - 192294377 ATTTTGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACACTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAACCAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996406 151 -  30496662 ATTTTGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACACTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTAGAAATTTATCTAATGATCCGTTATGACAACCAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13508987 151 +  21915920 ATTATGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACGCTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAACCAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009696 151 -  90373283 ATTATGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACGCTAAA-ATCAATGAAAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAACCAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528442 151 +   7543664 ATTATGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACGCTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAACCAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285463 151 -  13750039 ATTATGACT----GTCTCTCACATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTGACGCTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATCCGTTATGACAACCAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540143 150 +  50472720 ATTATGACT----GTCTCACTCATTTACCAAATGGGTGTAATATAAATCTGCACTCATTTGAAGGCAT-TAAGTGATGCTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCGGTGGAAATTTATCTAATGATTCATTATGACAACCAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718444 150 +  13128814 ATTATGATT----GTCTCACTCATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTG-AGGCATGCAAGTAATGCTGTA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATAATTCATTATGACAACCAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963808 149 -  14377064 --TATGACT----GTCTCACTCATTTACCAAACGGGTGTAATGTGAATTTGCACTCATTTGAAGGCATGCAAGTGATGCTAAA-ATCAATGAGAATGTATGTAATTACAAAGTTAATTCAGTGGAAATTTATCTAATGATTCATTATGACAACCAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186642 151 -   9889416 ATTATGACT----GTCTCACTCATTTACCAAATGGGTGTAATATGAATCTGCACTCATTTGAAGGCATGCAAGTAATGCTAAA-ATCAAAGAGAATGTATGTAATTACAAAGTTCATTCAGTGGAAAATAATCTAATGATTCATTATGACAACCAG
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2471747 151 +   3081153 --TATATCTAGTGATTTCGCACATCTAGTAAATGGGTGTAACTTGAATCTGTACCCATTTGAAAGTTTG--AGTGGTGTTAAGTACAAAAGAAAATGTATAGTTTTATAAAGTTAGTTCAGTACAAACTAACCTAATGATTCATTATAAAGATAA-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735293 182 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902980   0 -  38779656 C

a score=1114624.000000
s hg38.chr21_GL383579v2_alt    147103 114 +    201197 AGCTACAT---GTAACAAGTT-AATAATACCTTGTAATACATAATTTGAAGGAAAATACA--TTTTTATTATTTAATATTACTTAAATGGACAGAATAGAA-ATAATAGAAACCACATAGA----------------------------------------------
s panTro5.chr21               8765854 116 +  33445071 AGCTACAT---GTAATAAGTT-ACTAATACCTTGTAATACATAATTTGAAGGAAAATACATCTTTTTATTATTTAATATTACTTAAAGGGACAGAATAGAA-ATAATAGAAACCGCATAGA----------------------------------------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22304952 116 +  46275980 AGCTACAT---GTAATAAGTT-AATAATACCTTGTAATACATAATTTGAAGGAAAATACATCTTTTTATTATTTAATATTACTTAAAGGGACAGAATAGAA-ATAATAGAAACCACATAGA----------------------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8287591 116 -  13858734 AGCTACAT---GTAACAAGTT-AATAATACCTTGTAATACATAATTTGAAGGAAAATACATCTTTTTATTATTTAATATTACTTAAATGGACAGAATAGAA-ATAATAGAAACCACATAGA----------------------------------------------
i gorGor5.CYUI01015003v1    C 0 I 303
s nomLeu3.chr25               9311851 116 +  32716333 AGCTACAT---GTAACAAGTT-AATAATAGCTTGTAATACATAATTTGAAGGAAAATACATCTTTTTATTATTTAATATTACTTAAATGGATAGAATAGAA-ACAATAGAAACCACATAGA----------------------------------------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725849 115 - 185818997 AGCTACAT---GTAACAAGTT-AATAACACCTTGTAATACATAATTTGAAGGAAAATACATGCTTTTATTATTCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATACCACATAGA----------------------------------------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360514 115 - 192294377 AGCTACAT---GTAACAAGTT-AATAACACCTTGTAATACATAATTTGAAGGAAAATACATGCTTTTATTATTCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATACCACATAGA----------------------------------------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996557 115 -  30496662 AGCTACAT---GTAACAAGTT-AATAACACCTTTTAATACATAATTTGAAGGAAAATACATGCTTTTATTATTCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATACCACATAGA----------------------------------------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509138 115 +  21915920 AGCTACAT---GTAACAAGTT-AATAACACCTTGTAATACATAATTTGAAGGAAAATACATGCTTTTATTATTCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATGCTACGCAGA----------------------------------------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009847 115 -  90373283 AGCTACAT---ATAACAAGTT-AATAACACCTTGTAATACATAATTTGAAGGAAAATGCATGCTTTTATTATTCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATACCACACAGA----------------------------------------------
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528593 115 +   7543664 AGCTACAT---GTAACAAGTT-AATAACACCTTGTAATACATAATTTGAAGGAAAATACATGCTTTTATTATTCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATGCCACACAGA----------------------------------------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285614 115 -  13750039 AGCTACAT---GTAACAAGTT-AATAACACCTTGTAATACATAATTTGAAGGAAAATACATCCTTTTATTATCCAATATTACTTAATTTGACAGAATAGAA-ACAAT-TATACCACATAGA----------------------------------------------
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540293 112 +  50472720 AGCTATAT---GTTACAAGTT-AATAATACCTTGTAATACATAATTTGAAGGAAAATACATCtttttattatttaatattatttaaataGACCGAATAGAA---AAT-TATACTGCATAA-----------------------------------------------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718594 111 +  13128814 AGCTACAT---GTAACAAGTT-AATAATATCTTGTAATGCATAATTTGCAGGAAAATACATCtttttattatttaatattatttaaataGACTGAATAGAA---AAG-TATA-GACATAA-----------------------------------------------
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13963957 112 -  14377064 AGCTACAT---GTAACAAGTT-AATAATAACTTGTAATACATAATTTGCAGGAAAATACATCTTTTTATTATTTAATGTTATTTAAATAGACCGAATAGAA---AAT-TAGGCCACATAA-----------------------------------------------
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186793 112 -   9889416 AGCTACAT---GTAACAAGTT-AATAATACCTTGTAATACATAATTTGAAGGAAAATACATCTTTTTATTATTTAATGTTATTTAAATAGATCGAATAGAA---AAT-TATACCACATAA-----------------------------------------------
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735475 112 +  47401472 AGCTACAT---GTAACAAGTT-AATAATACATTGTAGTACATAATTTGAAGGGAAATAC-TTTTTTTATAATTTAACATTATTTCAATTGGCAGAAAAGAA---AAT-TATGCCACATACA----------------------------------------------
i micMur3.chr31             I 182 C 0
s dasNov3.JH578070            2471898 165 +   3081153 AACTATATAACATAACAAGTTAAATAATATCTTGCGGTGCTTCATTAGACATGaaatatttattttttatatttaaCATTATGTGACCTGGAAAACTAGAAAAAAAT-CATGCC-CATAAATATTAAACTTTAATTCTTTTAAATTCTACTTGCCCCTTACTTTAAA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902980   0 -  38779656 C

a score=416540.000000
s hg38.chr21_GL383579v2_alt    147217 40 +    201197 AAAATAAATGAACT--TCTAAAAATTTTATAATACTT--------TTACA
s panTro5.chr21               8765970 40 +  33445071 AAAATAAATGAACT--TCTAAAAATTTTATAATACTT--------TTACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22305068 40 +  46275980 AAAATAAATGAACT--TCTAAAAATTTTATAATACTT--------TTACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8288010 40 -  13858734 aaaataaaTGAACT--TCTAAAAATTTTATAATACTT--------TTACA
i gorGor5.CYUI01015003v1    I 303 C 0
s nomLeu3.chr25               9311967 40 +  32716333 AAAATAAATGAACT--TTTAAAAATTTTATAATACTT--------TTACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160725964 40 - 185818997 AAAATAAATGAACT--ATTAAAAATTCTATAATACAT--------TTACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360629 40 - 192294377 AAAATAAATGAACT--ATTAAAAATTCTATAATACAT--------TTACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996672 40 -  30496662 AAAATAAATGAACT--ATTAAAAATTCTATAATACTT--------TTACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509253 40 +  21915920 AAAATAAATGAACT--ATTAAAAATTCTATAATAATT--------TTACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20009962 40 -  90373283 AAAATAAATGAACT--ATTAAAAATTCTATAATACTT--------TTACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528708 40 +   7543664 AAAATAAATGAACT--ATTAAAAGTTCTATAATAATT--------TTACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285729 40 -  13750039 AAAATAAATGAACT--ATTAAAAATTCTGTAATACTT--------TTACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540405 40 +  50472720 AAAATAAATGAACT--TTCAAAAATTCTATAATTCTT--------TGACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718705 40 +  13128814 AAAATAAATGAACT--TTGAAAAATTCTATAATTCTT--------TGACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13964069 40 -  14377064 AAAATAAATGAACT--TTTAAAAATTCTATAATTCTT--------TGACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186905 40 -   9889416 AAAATAAATGAACT--TTTAAAAATTCTATAATTCTT--------TGACA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735587 36 +  47401472 ----AAAATAAACT--TTTTAAAATTCTATAATACTT--------TTATA
i micMur3.chr31             C 0 C 0
s dasNov3.JH578070            2472063 50 +   3081153 AAAATttttgaaataatttcaaacttctatgaaagttacaaattattaca
i dasNov3.JH578070          C 0 I 111
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902980  0 -  38779656 C

a score=340965.000000
s hg38.chr21_GL383579v2_alt    147257 35 +    201197 TTTTTAAAG-----TTTTTT-------ATCTAGAAATATTTAACATG
s panTro5.chr21               8766010 35 +  33445071 TTTTTATAG-----TTTTTT-------ATCTAGAAATATTTAACATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22305108 35 +  46275980 TTTTTATAG-----TTTTTT-------ATCTAGGAATATTTAACATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8288050 35 -  13858734 TTTTTAAAG-----TTTTTT-------ATCTAGAAATATTTAACATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9312007 35 +  32716333 TTTTTAGAG-----TTTTTA-------ATCTAGGAATATTTAACATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160726004 39 - 185818997 TTTTTAAAGAGAC-TTCTTT-------CTCTAGAAATATTTAACATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360669 39 - 192294377 TTTTTAAAGAGAC-TTCTTT-------CTCTAGAAATATTTAACATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996712 39 -  30496662 TTTTTAAAGAGAC-TTCTTT-------CTCTAGAAATATTTAACATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509293 39 +  21915920 TTTTTAAAGAGAC-TTTTTT-------CTCTAGAAATATTTAACGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20010002 39 -  90373283 TTTTTAAAGAGAT-TTTTTT-------CTCTAGAAATATTTAACATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528748 39 +   7543664 TTTTTAAAGAGAC-TTTTTT-------CTCTAGAAATATTTAACGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285769 40 -  13750039 TTTTTAGAGAGACATTTTTT-------CTCTAGAAATATTTAACATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540445 39 +  50472720 -TTTTAAAGAGAC-TTTTCTG------CTCTAGAAATATGTAACATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718745 40 +  13128814 -TTTTAAAGAGACTTTTTTTG------CTCTAGGAATATTTAACATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13964109 39 -  14377064 -TTTTAAAGAGAA-TTTTTTG------CTCTAGGAATATTTAGCATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186945 39 -   9889416 -TTTTAAAGAGAC-TTTTTTG------CTCCAGAAATATTTAACATA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23735623 37 +  47401472 TTTTTAAAGAG---TTTTTT-------CTCTAGAAATATTTAATATG
i micMur3.chr31             C 0 I 1320
s dasNov3.JH578070            2472224 42 +   3081153 TTTCTAAAG-----TTTTAAGCATAGACTGCATATATATTTAACATG
i dasNov3.JH578070          I 111 C 0
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902980  0 -  38779656 C

a score=1231192.000000
s hg38.chr21_GL383579v2_alt    147292 128 +    201197 AATTCTGATATTTAAAATTGTAAGTCACCTCTCAACTTATTTTAT--AAAAAACT-TTGTGTTTTGTTATACTAAAAATG----TGTTTCTTGC-AAATTACATTTATAAGTTTAATTTT-TGCATGTCAAATAGAA
s panTro5.chr21               8766045 128 +  33445071 AATTCTGATATTTAAAATTGTAAGTCACCTCTCAACTTATTTTAT--AAAAAACT-TTGTGTTTTGTTATACTAAAAATG----TGTTTCTTGC-AAATTACATTTATAAGTTTAATTTT-TGCATGTCAAATAGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22305143 130 +  46275980 AATTCTGATATTTAAAATTGTAAGTCACCTCTCAACTTATTTTATAAAAAAAACT-TTGTGTTTTGTTATACTAAAAATG----TGTTTCTTGC-AAATTACATTTATAAGTTTAATTTT-TGCATGTCAAATAGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8288085 128 -  13858734 AATTCTGATATTTAAAATTGTAAGTCACCTCTCAACTTATTTTAT--AAAAAACT-TTGTGTTTTGTTATACTAAAAATG----TGTTTCTTGC-AAATTACATTTATAAGTTTAATTTT-TGCATGTCAAATAGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9312042 128 +  32716333 AATTCTGATATTTAAAATTATAAGTCATCTCTCAACTTATTTTAT--AAAAAACT-TTGTGTTTTGTTATACTAAAAATA----TGTTTCTTGC-AAATTACATTTATATTTTTAATTTT-TGCATATCAAATGGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160726043 128 - 185818997 GATTCTGGTATTTAAAATTATAAGTCACCTCTCAATGTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTACATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360708 128 - 192294377 GATTCTGGTATTTAAAATTATAAGTCACCTCTCAATGTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTACATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996751 128 -  30496662 GATTCTGGTATTTAAAATTATAAGTCACCTCTCAATGTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTACATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509332 128 +  21915920 GATTCTGGTATTTAAAATTATAAGTCACCTCTCAATTTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTACATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20010041 128 -  90373283 GATTCTGGTATTTAAAATTATAAGTCACCTCTCAATTTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTATATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528787 128 +   7543664 GATTCTGATATTTAAAATTATAAGTCACCTCTCAATTTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTACATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285809 128 -  13750039 GATTCTGGTATTTAAAATTATAAGTCACCTCTCAATTTATTTTAT--ACAAAACC-TTGTGTTTTGTTATACTAAACATA----CTTTTCTTGC-AAATTACATTTGTAAGTTTAATTTT-TGCATATCAAATGGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540484 128 +  50472720 GATTCTGATATTTAAAATTAGAAGTCACCACTCAACTTATTTTAT--AAAAAAAC-TTGTGCTTTGTTATAACAAAAATA----TGTTTTTTAC-GAATTACATTTATAAGTTTAATGTT-TGTATATCAAATGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718785 128 +  13128814 GATTCTGATATTTAAAATTAGAAGTCACCACTCAACTTATTTTAT--AAAAAACC-TTGTGCTTTGTTATAACAAAAATA----TATTTCTTAC-AAATTACATTTATAAGTTTAATTTT-TGTATATCAAATGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13964148 126 -  14377064 GATTCTGATTTTTAAAATTAGAAGTTACCACTCAACTTATTTTAT--AAAAAACC-TTGTGCTTTGTTATAACAAAAGTA------TTTCTTAC-AAATAACATTTATAAGTTTAATGTT-TGTATATCAAATGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9186984 127 -   9889416 GATTTTGATATTTAAAATTAGAAGTCACCACTCAACTTATTTTAT--AAAAAATTATTGTGCTTTGTTATAACAAAAATG------TTTCTTAC-AAATTACATTTATAAGTTTAATTTT-TGTATATCAAATGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2472266 134 +   3081153 GATTTTAATACTTTAAATTATACATGGGCTCTCAGGTTAAGTTTA--GATTTACC-TCATGCTTTGCTATAATAAAAATAAATGTATCTCTTGTGAAAATATGTTCATAACCTTAATTTTCTGGTTGGAAAATGGAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735660 1320 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24902980   0 -  38779656 C

a score=4245730.000000
s hg38.chr21_GL383579v2_alt    147420 399 +    201197 CACTATATTTACACACATAGTTGGCTTCTTGTCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCTTGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAACAACATACATGAGTTGTTCATTTTTGTAACTTAGGCATTCATTTTGAAATTGATAAACAACCAATTAATATATGCTTTGACAGCTAATT--------AAAAATTAAAAACTTCACATGTACATAAGTCAGACATTACCTGCACAATTACCGTATATTTTATTTTCCACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTTTGGAGCATTATAGAGAAGGACTGTATCTTCTTTCAAAAGGATTCTTTGGAGAGATAAATTTGACAAATGTAATAATCTATTGCACATGTGGAAA
s panTro5.chr21               8766173 395 +  33445071 CACTATATTTACACCCATAGTTGGCTTCTTGTCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCTTACCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAACAACATACATGAGTTGTTCATTTTTGTAATTTAGGCATTCATTTTGAAATTGAT----AACCAATTAATATATGCTTTGACAGCTAATT--------AAAAATTAAAAACTTCACATGTACATAAGTCAGACATTACCTGCACAATTACCGTATATTTTATTTTCCACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTTTGGAGCATTATAGAGAAGGACTGTATCTTCTTTCAAAAGGATTCTTTGGAGAGATAAATTTGACAAACGTAATAATCTGTTGCACATGTGGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22305273 395 +  46275980 CACTATATTTACACCCATAGTTGGCTTCTTGTCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCTTACCCAGAACTTGATTATTATTAAAACTGTTTTTATTCAAACAACATACATGAGTTGTTCATTTTTGTAATTTAGGCATTCATTTTGAAATTGAT----AACCAATTAAAATATGCTTTGACAGCTAATT--------AAAAATTAAAAACTTCACATGTACATAAGTCAGACATTACCTGCACAATTACCGTATATTTTATTTTCCACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGGACTGTATCTTCTTTCAAAAGGATTCTTTGGAGAGATAAATTTGACAAATGTAATAATCTGTTGCACATGTGGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8288213 399 -  13858734 CACTATATTTACACACATAGTTGGCTTCTTGTCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCTTGCCCAGAACTTGACTATTATTAGAACTGTTTTTATTCAGACAACATACATGAGTTGTTCATTTTTGTAACTTAGGCATTCATTTTGAAATTGATAAACAACCAATTAATATATGCTTTGACAGCTAATT--------AAAAATTAAAAACTTCACATGTACGTAAGTCAGACATTACCTGCACAATTACCGTATATTTTATTTTCCACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTTTGGAGTATTGTAGAGAAGGACTGTATCTTCTTTCAAAAGGATTCTTTGGAGAGATAAATTTGACAAACGTAATAATCTGTTGCACATGTGGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9312170 399 +  32716333 CACTATATTTACACACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAAGTGTCTTGCCCAGAGCTTGACTATTATTAAAACTGTTTTTATTCAAACAACATACATGAGTTGTTCGTTTTTGTAACTTAGGCATTCATTTTGAAATTGATAAACAACCAATTAATATATGCTTCGATAGCTAATT--------AAAAATTTAAAACTTTGCATGTACATAAGTCAGACATTACCTGCACAATTACCGTATATTTTATTTTCCACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTTTGGTGCATTATAGAGAAGTACTATATCTTCTTTCAAAAGGATTCCTTGGAGAGATAAATTTGAGAAACATAATAATCTGTTGCACATGTGGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160726171 399 - 185818997 CCCTATATTTACGCACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCATGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAGCAAAATACATGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACCAATT--------AAAAAATAAAAACTTTACATGACCAGAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167360836 399 - 192294377 CCCTATATTTACACACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCATGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAGCAAAATACATGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACCAATT--------AAAAAATAAAAACTTTACATGACCAGAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4996879 399 -  30496662 CCCTATATTTACACACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCATGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAGCAAAATACATGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACCAATT--------AAAAAATAAAAACTTTACATGACCAGAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509460 399 +  21915920 CCCTATATTTACACATATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCATGCCCAGAACTTGACTATTATAAAAACTGTTTTTATTCAAGCAAAATACATGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACTAATT--------AAAAAATAAAAACTTTACATGAACAGAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20010169 399 -  90373283 CCCTATATTTACACACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCATGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAGCAAAATACATGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACTAATT--------AAAAAATAAAAACTTTACATGAACAGAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3528915 399 +   7543664 CCCTATATTTACACACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAACAATTGTCATGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAGCAAAATACATGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACTAATT--------AAAAAATAAAAACTTTACATGAACAGAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5285937 399 -  13750039 CCCTATATTTACACACATAATTGGCTTCTTATCTAAGACCTTG----ACTTGATGAAATGATTAAAATAATTGTCATGCCCAGAACTTGACTATTATTAAAACTGTTTTTATTCAAGCAAAATACAAGAATTGTTCATTTTTGTAACTTAGTCACTCATTTTGAAATTGATCAACAACCAATTAATATATGCTTTGACAACTAATT--------AAAAAATAAAAACTTTACATGAACATAAGTCCAACATTACCTGCACAATTACCATACATTTTATTTTCCACATGGCAGGAAAGATTCCTTTTTAAGTA-TTTTTTGGAACATTGTAGAGAAGTACTGTATCATCTTTCAAAAGAGTTCCTTGGGGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540612 363 +  50472720 CACTATATTTACATACATAATTGGCTTCTTATCTAAGACCTTG----ACCTGATAAAATGATTAAAACAATTTTCTTACCCAGAACTTGACTGCCATTAAAACTCTCTTTATTCAAACAACATACATG------------------------------------GATTAATAAACAACCAATTAATATATGCTTTGACAGCTAATT--------AAAAAATAAAAACTTCACATGAACATAAGTCAAGCAATACCTGCACAATTACCATATATTTTATTTTCTACATGGAAGGAAAGATTCATTTTTAAGTA-TTTTTTGGAGCATTGTAGAGAAGTCCTGTATCTTTTTTCAAAATGGTTCCTTGGAGAGATAAATTTGACAAACATAATAATCTGATGCATATGTGGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8718913 364 +  13128814 CATTATATTTACATACATAATTGACTCCTTATTTAAGACCTTG----ACTTGCTATAAGGATTAAAACAATTTTCTTACCCAGAACTTGACTGTTATTAAAACTCTCTTTATTCAAACAACATACATG------------------------------------GATTGATAAACAACCAAATAACATATGTTTTGACAGCTAATT--------AAAAAATAAAAACTTCATATGAACATAAGGCAAACATTACCTGCACAATTACCACACATTTTATTTTCTACATGGCAGGAAAGATTCATTTTTAAGTATTTTTTTGGAGCATTGTAGAGAAGTACTGTATCTTTTTTCAAAAGGGTTCCTTGGAGAGATAAATTTGACAAACATAATAATCTGTTGCATACGTGGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13964274 363 -  14377064 CACTATGTTTACATACATAATTGGCTCCTTATCTAAAACCTTG----AGTTGATAAAATGATTAAAACAATTTTCTTACCCAGAACTTGACTGTTATTAAAACTTTCTTTATTCAAACAACATACATG------------------------------------GATTGGTAAACAACCAATTAATATACGTTTTGACAGCTAATT--------GAAAAATAAAAACTTCACATGAACATAAGTCAAACATTACCTGCACAATTACCATACATTTTATTTTCTACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTTTGGAGCATTATAGAGAAGTACTATATCTTTTTTCCAAAGGGTTCCTTGGAGAGATAAATTTGACAAACATAATAATCTGTTGCATATGTGGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9187111 363 -   9889416 CACTATATTTACATACATAATTGGCTCCTTATCTAAGACCTTG----ACTTGATAAAATGATTAAAACAATTTTCTTACCCAGAACTTGACTGCTATTAAAACTCTCTTTATTCAAACAACATACATG------------------------------------GATTGATAAACAACCAATTAATATACCTTTTGACAGTTAATT--------AAAAAATAAAAACTTCACATGAACATAAGTCAAACATTACCTGCACAATTACCATACATTTTATTTTCTACATGGCAGGAAAGATTCATTTTTAAGTA-TTTTCTGGAGCATTGTAGAGAAATACCGTGTCTTTTTTCAAAAGGGTTCCTTGGAGAGATAAATTTGACAAACATAATAATCTGTTGTATATGTGGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24902980 381 -  38779656 CATCGTATTTA-------AATTGGCTCCTTATCAAAGTCCATG----ATTTGATGAAATGATCAAAACAATTCTCTTGCCCAGAACTTGCCTGTTATTAAAATTCTTTTTATTCAAACAATATATGTGAATTGTTCATTTTGGTAACTGTGGCTTTCATTTTGAAA---ATGTATAACCATTTAATATATGTTTTGACAGCTAACT--------AAAAA--AAAAACTTTACATGAAGATAAATCAGACATTCCTTGCAAAATTACCACAAATTTTAGTTTTCGCATGGCAGGAAAACATTATGCTTAAATA-TTTTCTAGATGAT----GTGAAGTACTATATCTTCTTCTGAAAAAA--AATTGAAGAAATAAATTCAACGAACCTTATATTCTGGTGCATACTTAGAAA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2472400 394 +   3081153 CACTGTATCTTCTGATTTAATTGTCT-CTTATCTGAAATAATGCAGAACTTGATGAAACTATTAAAACAATCCTCTTGCCCATGATTTGGTTGTTATTAAAACTACGTTTATTCAAGCTACATGCTTGAATTATTTGTTTTGGTAATTGAAACGTTCCTTTTGAAACTGATATAC----------------TTTTGACAGCTATGTTTATAAAAGAAAAAAAAACACTTTACATAAAGGTAAAGCAAGTATTTCTTTCAATATTAACACATATTTTAGTTCCCATAAGGCAAGGAAGATACATTCTTAAATG-CTTATTGGAGCATTGGAGAGAAGTACTATATCTTCTTTTCAAAGAGGATCTTGGGAAGATAAATTTGACAAACAATATGGTATAATTCATATTTGGAAA
i dasNov3.JH578070          C 0 I 804
e micMur3.chr31              23735660 1320 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=17591.000000
s hg38.chr21_GL383579v2_alt    147819 3 +    201197 ACA
s panTro5.chr21               8766568 3 +  33445071 ACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22305668 3 +  46275980 ACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8288612 3 -  13858734 ACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9312569 3 +  32716333 ACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160726570 3 - 185818997 ATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167361235 3 - 192294377 ATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4997278 3 -  30496662 ATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509859 3 +  21915920 ATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20010568 3 -  90373283 ACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3529314 3 +   7543664 ATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5286336 3 -  13750039 ATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540975 3 +  50472720 ACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8719277 3 +  13128814 ACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13964637 3 -  14377064 ACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9187474 3 -   9889416 ACA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24903361 2 -  38779656 TA-
i otoGar3.GL873528          C 0 I 895
s dasNov3.JH578070            2473598 3 +   3081153 ATA
i dasNov3.JH578070          I 804 C 0
e micMur3.chr31              23735660 1320 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=9072065.000000
s hg38.chr21_GL383579v2_alt    147822 913 +    201197  
s panTro5.chr21               8766571 913 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22305671 913 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8288615 913 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9312572 898 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160726573 915 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167361238 915 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4997281 915 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13509862 915 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20010571 912 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3529317 915 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5286339 914 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26540978 968 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8719280 969 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13964640 985 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9187477 992 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24904258 923 -  38779656  
i otoGar3.GL873528          I 895 C 0
s dasNov3.JH578070            2473601 843 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23735660 1320 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=726254.000000
s hg38.chr21_GL383579v2_alt    148735 65 +    201197 TTACAACTTAAAATTTCT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
s panTro5.chr21               8767484 65 +  33445071 TTACAACTTAAAATTTCT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22306584 65 +  46275980 TTACAACTTAAAATTTCT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8289528 65 -  13858734 TTACAACTTAAAATTTCT---GCAAATAAAGCACTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9313470 65 +  32716333 TTACAACTTAAAACTTCT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160727488 65 - 185818997 TTATGACTTAAAATTTCT---GCAAATAAAGTGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167362153 65 - 192294377 TTATGACTTAAAATTTCT---GCAAATAAAGTGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4998196 65 -  30496662 TTATGACTTAAAATTTCT---GCAAATAAAGTGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13510777 65 +  21915920 TTATGACTTAAAATTTGT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20011483 65 -  90373283 TTATGACTTAAAATTTCT---GCATATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3530232 65 +   7543664 TTATGACTTAAAATTTGT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5287253 65 -  13750039 TTATGACTTAAAATTTCT---GCAAATAAAGCGCTTATATTTTAGTGTGAAAT-AAAAGTGAGTTTCTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26541946 64 +  50472720 TTACAACTTCAAATTCCT---ACAAATCAAGTGC-TATTTTGTACTGTGAAAT-AGAAATGAGTTTTTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8720249 62 +  13128814 TTACAACTT--AATTCCT---ACAAATCAAGTGC-TGTTTGGTACAGTGAAAT-AGAAGTGAGTTTCTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13965625 64 -  14377064 TTACAACTTAAAATTCCT---ACAAATCAAGTGC-TATTTTGTACTGTGAAAT-AGAAATGAGTTTCTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9188469 62 -   9889416 TTACAACTTAAAATTCCT---ACAAATCAAGTGC-TATTTTGTACTGTGAAAT-AGAAGT--GTTTCTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23736980 65 +  47401472 TTACAACTTAAAGTTCCT---ACAAATGAAACATTCATATTTTAGTGTGAAAT-AAAGGTGAGTTTCTA
i micMur3.chr31             I 1320 I 240
s otoGar3.GL873528           24905181 65 -  38779656 TTATAGGTTAAAACTCCT---ACAAATGAAACACTCTTATTTTATTGTGAAAT-AAAGATGAATTTTTA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2474444 68 +   3081153 TGACAAACTTAAATTTCTGTGGCAAACAAAACAC-TTTATTACAATGTGAAATGAAAAATAAGTTCCAA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=1825758.000000
s hg38.chr21_GL383579v2_alt    148800 181 +    201197 GATAAACTCA---TAAGCAAAGAAAATCAAGAAATACTGCAACTTCACGCACTGTTAGTATGTGCA-TCTTTCTAGCTTGACAATTCTGCGTGTTT-----AGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATGTTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACAAAATAAAGCTGC
s panTro5.chr21               8767549 181 +  33445071 GATAAACTCA---TAAGCAAAGAAAATCAAGAAATACTGCAACTTCACGCACTGTTAGTATGTGCA-TCCTTCTAGCTTGACAATTCTGCGTGTTT-----AGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATGTTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACACAATAAAGCTGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22306649 181 +  46275980 GATAAACTCA---TAAGCAAAGAAAATCAAGAAATACTGCAACTTCACGCACTGTTAGTATGTGCA-TCCTTCTAGCTTGACAATTCTGCGTGTTT-----AGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATGTTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACACAATAAAGCTGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8289593 181 -  13858734 GATAAACTCA---TAAGCAAATAAAATCAAGAAATACTGCAACTTCACGCACTGTTAGTATGTGCA-TCTTTCTAGCTTGACAATTCTGCGTGTTT-----AGTAAGCAAATGCCATACT---------TA-TTTTTTCTCTTATATGTTTCCTTCAAATAAAATCTGACT-AAGAAT-CTGTGATCACAAAATAAAGCTGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9313535 181 +  32716333 GATAAACTCA---TAAGCAAAGAAAATCAAGAAATATTGCAACTTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCTTGTTT-----AGCAAGCAAATGTCATGCA---------TA-TTTTTTCTGTTATATGTTCCCTTCAAATAAAATCGGACT-GAGAAT-CCGTGATCACAAAATAAAGCTGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160727553 185 - 185818997 GATAAACTCA---TAAACAA-GAAAATCAAGAAATACTGCAAATTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTCAGTAAGCAAATGCCATGCA---------TT-TTTTTTCAGTTATATATTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACATACTAAAGCTGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167362218 185 - 192294377 GATAAACTCA---TAAACAA-GAAAATCAAGAAATACTGCAAATTCATGCACTCTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTCAGTAAGCAAATGCCATGCA---------TT-TTTTTTCAGTTATATATTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACATACTAAAGCTGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4998261 184 -  30496662 GATAAACTCA---TAAACAA-GAAAATCAAGAAATACTGCAAATTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTCAGTAAGCAAATGCCATGCA----------T-TTTTTTCAGTTATATATTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACATACTAAAGCTGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13510842 185 +  21915920 GATAAACTCA---TAAACAT-GAAAATCAAGAAATACTGCAAATTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTTAGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATATTTCCTTCAAATAAAATCTGACT-gagaat-ctgtgatcacatactaaagctgc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20011548 181 -  90373283 GATAAACTCA---TAAACAA-GAAAATAAAGAAATACTGCAAATTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTTAGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATATTTCCTTCAAATAAAAT----CT-GAGAAT-CTGTGATGACATACTAAAGCTGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3530297 184 +   7543664 GATAAACTCA---TAAACAA--AAAATCAAGAAATACTGCAGATTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTTAGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATATTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATGACATACTAAAGCTGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5287318 185 -  13750039 GATAAACTCA---TAAACAA-GAAAATCAAGAAATACTGCAAATTCATGCACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCATGTTTAATTTAGTAAGCAAATGCCATACA---------TA-TTTTTTCTGTTATATATTTCCTTCAAATAAAATCTGACT-GAGAAT-CTGTGATCACATACTAAAGCTGC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26542010 188 +  50472720 GATAAACTCATTATAAACAA-GAAAATCAAAAAATACTGCAAATACACGTACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCTTGTTAAATTTAGTAAGCAAATGACATACA---------TA-TTTCTTCTGTTATTTATTTCCATCAAATAAAATCTGACA-GAGAAA-CCATGATCACATACGAAAGCTGC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8720311 188 +  13128814 GATAAACTCATTTTAAACAA-GAAAATCAAAAAATACTGCAAATACACGTACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTATGCTTGTTTAATTTAGTAAGCAAATGACATACA---------TA-TGTTTTCTGTTATTTATTTCCATCAAATAAAATCTGACA-GAGAAA-CCATGATCACATACCAAAGCTGC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13965689 188 -  14377064 GATAAACTCATTGTAAAAAA-GAAAATCAAAAAATACTGCAAATACACATACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTCTGCTTGTTTAATTTAGTAAGCAAATGACATACA---------TA-TTTTTTCTGTTATTTATTTCCATCAAATAAAATCTGACA-GAGAAA-CCATGATCACATACCAAAGctgc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9188531 189 -   9889416 GATAAACTCATTATAAACAA-GAAAATAAAAAAATACTGCAAATATATGTACTGTTAGCATGTGCA-TCTTTCTAGCTTGACAATTTTGCTTGTTTAATTTAGTAAGCAAATGACATACA---------TATTTTTTTCTGTTATTTATTTCCATCAAATAAAATCTGACA-AAGAAA-CCATGATCACATACCAAAGCTGC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24905246 199 -  38779656 GAAGGACTCACTATAAACAA-GAAACTCAAGATATATTGTAAATTCAGGTATGATTAATATATTCATTTTTTCCCACTTGAGAATTCTGCTTGTTTAATTAGATAAGCAAAAGTCatatataaatatatta-atttttCCATCATATAATTCCATCAAATACAAATTAACTCAAAAAG-CAATGATTAGATACTAAATCTGC
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2474512 166 +   3081153 GAAGCATTCA---TTGAAAACAAAAATCAGAAAA---TGTAAATCTGTGTATTATTTGAATATGTA-CCTTTCTTTTTCGATAATTCTTC---TTTAATGTGGTAGGCAAATATCATATA---------GA---------GGAAAGGGGT-------AATGCAAACTGAGT-CAGAAAGCTGAGATCAGACAACAAACCTGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23737045 240 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1202626.000000
s hg38.chr21_GL383579v2_alt    148981 101 +    201197 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGACCACTTTCTGTAGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTATAGATGT
s panTro5.chr21               8767730 101 +  33445071 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTGTAGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTATAGATGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22306830 101 +  46275980 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTGTAGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTATAGATGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8289774 100 -  13858734 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTGTAGAATCTTATC-ATAAAATGTAAATAAATTAAAGGAGAGTATAGAAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9313716 101 +  32716333 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTGTAGAATCTTATCTATAAAATGTAAACAAATTAAAGGAGAGTATAGATGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160727738 101 - 185818997 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTATGGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTACAGATGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167362403 101 - 192294377 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTATGGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTACAGATGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4998445 101 -  30496662 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTATGGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTACAGATGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13511027 101 +  21915920 taattatgagctgggtcaccttggat--cttatctaggaaacaatcactttctgtggaatcttatctataaaatgtaaataaATTAAAGGAGAGTACAGATGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20011729 101 -  90373283 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTGTGGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTACAGATGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3530481  96 +   7543664 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAACAATCACTTTCTGTGGAATCTTGTCTGTAAAATGTAAA-----TAAAGGAGAGTACAGATGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5287503 101 -  13750039 TAATTATGAGCTGGGTCACCTTGGAT--CTTATCTAGGGAAGGATCACTTTCTGTGGAATCTTATCTATAAAATGTAAATAAATTAAAGGAGAGTATAGATGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26542198  94 +  50472720 TAATTATGAGCTGGGTTAC---------CTTATCTATGGAAGGATCACTTTCTGTAGACTCTTATCTATAAAATGTAAATAAACTAAAGGAGAGCATAGATGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8720499 101 +  13128814 TAATTATGAGCTGGGTCACCTTGCAT--CTTATCTGTGGAAGGATCACTTTCTATAGAATCTTATCtataaaatataaataaattaaaGGAGAGCATAGATGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13965877  96 -  14377064 taattatgagctgggttaccttggat--cttatctctggaaggatcactttctatagaatcttatctataaaatataaa-----taaAGGAGAGCATAGATGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9188720 101 -   9889416 TAATTATGAGCTGGGTTACCTTGGAT--CTTATCTATGGAAGGATCGCTTTCTATAGAATCTTATCTATAAAATGTAAATAAATTAAAGGCGAGCATAGGTGT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23737285 101 +  47401472 TAATTATGAGTTGGGTCATGTTGGAT--CTTACCTAGAGAAGGATAGTCTTCTCTTGGATCTTATGTATAAAATGGAAATAAATTAAGGAAGAGCATAGATGT
i micMur3.chr31             I 240 I 97
s otoGar3.GL873528           24905445  99 -  38779656 TAATTATGAGGTGAGTCACCTTGGGT--CTTATCT--AGAAGAATATTCCTCTCTAGGATCTTATCTATAAAATGGAAATAAATTTAAGGAGCACAAAGATGT
i otoGar3.GL873528          C 0 I 7
s dasNov3.JH578070            2474678  87 +   3081153 TACTTA-AAATAGGTTAACGTTGAGTGATTTATTTAAAA---------CTTCTCTAGGATCT------AAAAATAGATATTCATTATGAGAGAGCATAGGTGT
i dasNov3.JH578070          C 0 I 7
e canFam3.chr31              18070382 813 +  39895921 I

a score=768954.000000
s hg38.chr21_GL383579v2_alt    149082 75 +    201197 ATTATATGTGGACATGCATACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC----------T------TTTT-AGAACCGAACTATTG
s panTro5.chr21               8767831 78 +  33445071 ATTATATGTGGACATGCATACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC-------TTTT------TTTT-AGAACCGAACTATTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22306931 78 +  46275980 ATTATATGTGGACATGCATACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC-------TTTT------TTTT-AGAACCGAACTATTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8289874 78 -  13858734 ATTATATGTGGACATGCATACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC-------TTTT------TTTT-AGAACCGAACTATTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9313817 81 +  32716333 ATTATATGTGGACATGCATACTAAAAA--TGTATACTGTTTGTGAA---CATATTCAGATAC-------TTTT------TTTTAAGAACTGAACTATTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160727839 82 - 185818997 ATTATATGTGGATGTGCACACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC---TTTTTTTT------TTTT-AGAACTAAACTATTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167362504 82 - 192294377 ATTATATGTGGATGTGCACACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC---ATTTTTTT------TTTT-AGAACTAAACTATTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4998546 83 -  30496662 ATTATATGTGGATGTGCACACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC--TTTTTTTTT------TTTT-AGAACTAAACTATTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13511128 82 +  21915920 ATTATATGTGGATGTGCACACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC---TTTTTTTT------TTTT-AGAACTAAACTATTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20011830 81 -  90373283 ATTATATGTGGATGTGCACACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATAC----TTTTTTT------TTTC-AGAATTGAACTATTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3530577 85 +   7543664 ATTATATGTGGATGTGCACACTAAAAA--TGTATACTGTT--TGAA---CATATTCAGATACTTTTTTTTTTT------TTTT-AGAACTAAACTATTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5287604 83 -  13750039 ATTATATGTGGATGTGCACACTAAAAA--TGTCTACTGTT--TGAA---CATATTCAGATAC--TTTTTTTCT------TTTT-AGAACTGAACTATTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26542292 79 +  50472720 ATTATATGTGGATATGCATACTAAAAAGGTGTATACCGTT--TGAA---TATATTCAGATAA--------TTG------TTTT-TGAACTGAACTAGTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8720600 79 +  13128814 ATTATATGTGGATATGCATACTAAAAAATTGTATACTGTT--TGAA---CATATTCAGATAA--------TTG------TTTT-TGAACTGAACTGTTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13965973 78 -  14377064 ATTATATGTGGATATGCATACTAAAAAA-TGTATACTGTT--TGAA---CATATTCAGATAA--------TTG------TTTT-TGAACTGAACTATTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9188821 78 -   9889416 ATTATATGTGGATATGCATACTAAAAAA-TGTATACTGTT--TGAA---CATATTCAGATAA--------TTG------TTTT-TGAACTGAGCTATTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24905551 87 -  38779656 ATTACATGTGTGCATTCATACTGAAAAA-TGTATACTATT--TAAACTTCAAATTCCCATGC--TTATTTTAT------TTTA-AAAATAGGACTACAA
i otoGar3.GL873528          I 7 C 0
s dasNov3.JH578070            2474772 94 +   3081153 ATTATATATGGATATTTATAGTAAAAAG-TAGATATTGTT--TGAATGTCATATTCAGAGAA-ACTTTCTTTTAGCTCATTTT-AAAACAGGACTGAAA
i dasNov3.JH578070          I 7 C 0
e micMur3.chr31              23737386 97 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=535334.000000
s hg38.chr21_GL383579v2_alt    149157 54 +    201197 TATTTAGAATTTACTTCAATTGAGCCTTCCTCTTTTTAAGTAGA-CTGGAACATT
s panTro5.chr21               8767909 54 +  33445071 TATTTAGAATTTACTTCAATTGAGCCTTCCTCTTTTTAAGTAGA-CTGGAACATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22307009 54 +  46275980 TATTTAGAATTTACTTCAATTGAGCCTTCCTCTTTTTAAGTAGA-CTGGAACATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8289952 54 -  13858734 TATTTAGAATTTACTTCAATTGAGCCTTCCTCTTTTTAAGTAGA-CTGGAACATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9313898 54 +  32716333 TATTTAGAATTTACTTCAGTTGAGCCTTTCTCTTTTTAAGTAGA-CTGGAACGTT
i nomLeu3.chr25             C 0 I 1
s rheMac8.chr3              160727921 42 - 185818997 CGTTTAG------------TTGAGCCTTTCTCTTTTTAAGTAGA-TGGGAATATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167362586 42 - 192294377 CGTTTAG------------TTGAGCCTTTCTCTTTTTAAGTAGA-TGGGAATATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4998629 42 -  30496662 CGTTTAG------------TTGAGCCTTTCTCTTTTTAAGTAGA-TGGGAATATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13511210 42 +  21915920 TGTTTAG------------TTGAGCCTTTCTCTTTTTAAGTAGA-CGGGAATATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20011911 54 -  90373283 TGTTTAGAATTTACTTCAATTGAGCCTTTCTCTTTTTAAGTAGA-CGGGAATATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3530662 42 +   7543664 TGTTTAG------------TTGAGCCTTTCTCTTTTTAAGTAGA-CGGGAATATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5287687 54 -  13750039 TGTTTAGAATTTACTTCAATTGAGCCTTTCTCTTTTTAAGTAGA-CGGGAATATT
i colAng1.NW_012120598v1    C 0 I 110
s calJac3.chr21              26542371 54 +  50472720 TGTTTAGAATTTACTTTCATTGAGCCTTTCTCTTTATAAGTGGA-CAGGAATATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8720679 54 +  13128814 TATTTAGAATTTACTTTAATTAGGCCTTTCTCTTTATAAGTGGA-CACAAATATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13966051 54 -  14377064 TGTTTAGAATTTACTTTAATTGGGTGTTTCTCTTTATAAGTGGA-CAGGAATGTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9188899 54 -   9889416 TGTTTAGAATTTACTTTAATTGGGCCTTTCTCTTTATAAGTGGA-CAGGAATATT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23737483 54 +  47401472 tatttaggatttatttCAACTTGGCCTTTCTCTTTTTAAGTAAA-CAGGAACATT
i micMur3.chr31             I 97 C 0
s otoGar3.GL873528           24905638 54 -  38779656 TGTTTAAGGTTTACTTCAATTTGTTCTTTCTATTTTTAAGTAGA-CAGGAACATT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2474866 55 +   3081153 TGTTTAAGACTTATTTCAGGTTGAAATTTCTCTTTTTAAGTGGACCAGGAACAAT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=7112386.000000
s hg38.chr21_GL383579v2_alt    149211 589 +    201197  
s panTro5.chr21               8767963 587 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22307063 589 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8290006 589 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9313953 588 +  32716333  
i nomLeu3.chr25             I 1 C 0
s rheMac8.chr3              160727963 589 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167362628 589 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4998671 586 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13511252 588 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20011965 584 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3530704 588 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5287851 582 -  13750039  
i colAng1.NW_012120598v1    I 110 C 0
s calJac3.chr21              26542425 583 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8720733 583 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13966105 582 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9188953 583 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23737537 568 +  47401472  
i micMur3.chr31             C 0 I 609
s otoGar3.GL873528           24905692 572 -  38779656  
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2474921 586 +   3081153  
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=41581.000000
s hg38.chr21_GL383579v2_alt    149800 6 +    201197 ATTTTT--
s panTro5.chr21               8768550 6 +  33445071 ATTTTT--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22307652 6 +  46275980 ATTTTT--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8290595 6 -  13858734 ATTTTT--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9314541 6 +  32716333 ATTTTT--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160728552 6 - 185818997 TTTTTT--
i rheMac8.chr3              C 0 I 80
s macFas5.chr3              167363217 6 - 192294377 TTTTTT--
i macFas5.chr3              C 0 I 62
s macNem1.NW_012015021v1      4999257 6 -  30496662 TTTTTT--
i macNem1.NW_012015021v1    C 0 I 80
s cerAty1.NW_012002954v1     13511840 6 +  21915920 TTTTTT--
i cerAty1.NW_012002954v1    C 0 I 81
s chlSab2.chr2               20012549 6 -  90373283 GTTTTT--
i chlSab2.chr2              C 0 I 78
s manLeu1.NW_012103476v1      3531292 6 +   7543664 TTTTTT--
i manLeu1.NW_012103476v1    C 0 I 81
s colAng1.NW_012120598v1      5288433 6 -  13750039 TTTTTT--
i colAng1.NW_012120598v1    C 0 I 83
s calJac3.chr21              26543008 6 +  50472720 TTGTTT--
i calJac3.chr21             C 0 I 8
s saiBol1.JH378168            8721316 6 +  13128814 TTGTTT--
i saiBol1.JH378168          C 0 I 8
s cebCap1.NW_016107322v1     13966687 6 -  14377064 TTGTTT--
i cebCap1.NW_016107322v1    C 0 I 8
s aotNan1.NW_018487195v1      9189536 6 -   9889416 TTGTTT--
i aotNan1.NW_018487195v1    C 0 I 8
s otoGar3.GL873528           24906264 6 -  38779656 TTGTTT--
i otoGar3.GL873528          C 0 I 1
s dasNov3.JH578070            2475507 6 +   3081153 --ATTTAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23738105 609 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=-24475.000000
s hg38.chr21_GL383579v2_alt    149806  4 +    201197 AT-------------------------------------------------------------------------------------------------------------------------GA
s panTro5.chr21               8768556 85 +  33445071 ATTTAAAAAAATACAGGAAATACAATGCTAA----------------------------------------GAAAAAAGGGATTGATTTCAATGCTGAAGAATAAACATTTTCTGTTATATGAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22307658 85 +  46275980 ATTTAAAAAAATACAGGAAATACAATGCTAA----------------------------------------GAAAAAAGGGATTGATTTCAATGCTGAAGAATAAACATTTTCTGTTATATGAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8290601 85 -  13858734 ATTTAAAAAAATACAGGAAATACAATGCTAA----------------------------------------GAAAAAAGGGATTGATTTAAATGCTGAAGAATAAACATTTTCTGTTATATGAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9314547 84 +  32716333 ATTT-AAAAAATACAGGAAATACAATGCTAA----------------------------------------GAAAAGAGGAATTGATTTCAATGCAGAAGAATAAACATTTTCTGTTATATGAGA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167363285  4 - 192294377 -----------------------------------------------------------------------------------------------------ATAA--------------------
i macFas5.chr3              I 62 I 14
s calJac3.chr21              26543022 75 +  50472720 --------AAATACAGAAAATACAATGATAAGAAGAGGGATTGATTTCAAC------------------------------------------ACTGAAATAAAGATATTTTCGGTTATATGAGA
i calJac3.chr21             I 8 C 0
s saiBol1.JH378168            8721330 77 +  13128814 --------AAATGCAGAAAATACAATGATAAGA------------------AAAGAGGGATTGATTTCAAC----------------------ACCCAAATACAGATATTTTCTGTTATATGAGA
i saiBol1.JH378168          I 8 C 0
s cebCap1.NW_016107322v1     13966701 77 -  14377064 --------AAATGCAGAAAATACAATGATAAGA------------------AAAGAGGGATTGATTTCAAC----------------------ACCGAAATACAGATATTTTCTGTTCTATGAGA
i cebCap1.NW_016107322v1    I 8 C 0
s aotNan1.NW_018487195v1      9189550 77 -   9889416 --------AAATGCAGAAAATACAATGATAAGA------------------AAAGAGGGATTGATTTTAAC----------------------ACTGAAATACAGATATTTTCTGTCATATGAGA
i aotNan1.NW_018487195v1    I 8 C 0
s otoGar3.GL873528           24906271  4 -  38779656 ------------------------------------------------------------------------------------------------------------------ATTA-------
i otoGar3.GL873528          I 1 C 0
s dasNov3.JH578070            2475513  4 +   3081153 ----------------AAAA---------------------------------------------------------------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23738105 609 +  47401472 I
e cerAty1.NW_012002954v1     13511846 81 +  21915920 I
e macNem1.NW_012015021v1      4999263 80 -  30496662 I
e rheMac8.chr3              160728558 80 - 185818997 I
e canFam3.chr31              18070382 813 +  39895921 I
e colAng1.NW_012120598v1      5288439 83 -  13750039 I
e manLeu1.NW_012103476v1      3531298 81 +   7543664 I
e chlSab2.chr2               20012555 78 -  90373283 I

a score=12376.000000
s hg38.chr21_GL383579v2_alt    149810 1 +    201197 A
s panTro5.chr21               8768641 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22307743 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8290686 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9314631 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160728638 1 - 185818997 A
i rheMac8.chr3              I 80 C 0
s macFas5.chr3              167363303 1 - 192294377 A
i macFas5.chr3              I 14 C 0
s macNem1.NW_012015021v1      4999343 1 -  30496662 A
i macNem1.NW_012015021v1    I 80 C 0
s cerAty1.NW_012002954v1     13511927 1 +  21915920 A
i cerAty1.NW_012002954v1    I 81 C 0
s chlSab2.chr2               20012633 1 -  90373283 A
i chlSab2.chr2              I 78 C 0
s manLeu1.NW_012103476v1      3531379 1 +   7543664 A
i manLeu1.NW_012103476v1    I 81 C 0
s calJac3.chr21              26543097 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8721407 1 +  13128814 A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13966778 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9189627 1 -   9889416 A
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24906275 1 -  38779656 A
i otoGar3.GL873528          C 0 I 77
s dasNov3.JH578070            2475517 1 +   3081153 A
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23738105 609 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I
e colAng1.NW_012120598v1      5288439 83 -  13750039 I

a score=5007509.000000
s hg38.chr21_GL383579v2_alt    149811 536 +    201197  
s panTro5.chr21               8768642 533 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22307744 533 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8290687 533 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9314632 533 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160728639 530 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167363304 530 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4999344 529 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13511928 530 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20012634 528 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3531380 530 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5288522 531 -  13750039  
i colAng1.NW_012120598v1    I 83 C 0
s calJac3.chr21              26543098 519 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8721408 516 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13966779 518 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9189628 518 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24906353 542 -  38779656  
i otoGar3.GL873528          I 77 C 0
s dasNov3.JH578070            2475518 572 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23738105 609 +  47401472 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=990517.000000
s hg38.chr21_GL383579v2_alt    150347 89 +    201197 atttttactttcccca--a--tttTTTCTCAGATTAAAACTTATTCTCCCATATAGG-TTTTTACTTTCCCCAATTAAAAATAATATATTTTAT
s panTro5.chr21               8769175 89 +  33445071 atttttactttcccca--a--tttTTTCTCAGATTAAAACTTATTCTTCCATATAGG-TTTTTACTTTCCGCAATTAAAAATAATATATTGTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22308277 89 +  46275980 atttttactttcccca--a--tttTTTCTCAGATTAAAACTTATTCTTCCATATAGG-TTTTTACTTTCCGCAATTAAAAATAATATATTGTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8291220 89 -  13858734 atttttactttcccca--a--tttTTTCTCAGATTAAAACTT-TTCTCCCATATAGGTTTTTTACTTTCCACAATTAAAAATAATATATTGTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9315165 89 +  32716333 atttttactttcccca--a--tttTTTCTCAGATTAAAACTTATTCTGTCATATAGG-TTATTACTTTCCCCAATTAAAAATAATATATTGTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160729169 89 - 185818997 atttttacattcccca--t--ttTTTTCTCAGATTAAAACTTATTCTCCCATATAGG-TTTTTACTTTCCCCAGTTAAAAATAATATATTTTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167363834 89 - 192294377 atttttacattcccca--t--ttTTTTCTCAGATTAAAACTTATTCTCCCATATAGG-TTTTTACTTTCCCCAGTTAAAAATAATATATTTTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4999873 89 -  30496662 atttttacattcccca--t--ttTTTTCTCAGATTAAAACTTATTCTCCCATATAGG-TTTTTACTTTCCCCAGTTAAAAATAATATATTTTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13512458 89 +  21915920 atttttacattcccca--t--ttTTTTCTCAGATTAAAACTTATTCTCCCATATAGG-TTTTTACTTTCCCCAGTTAAAAATAATATATTTTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20013162 88 -  90373283 atttttactttcccta-----tttTTTCTCAGATTAAAACTTATTCTTCCATATAGG-TTTTTACTTTCCCCAATTAAAAATAATATATTTTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3531910 89 +   7543664 atttttacattcccca--t--ttTTTTCTCAGATTAAAACTTATTCTCCCATATAGG-TTTTTACTTTCCCCAGTTAAAAATAATATATTTTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5289053 89 -  13750039 ATTTTTACATTCTCCA--T--TTTTTTCTCAGATTAAAACTTATTCTCTCATATAGG-TTTTTACTTTCCCCGATTAAAGATAATATATTTTGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26543617 90 +  50472720 AGTTTTACTTTCCCCA--ATTTTTTTTCCCAGATTAAAG-CTATTCTCCCATGTAAG-TTTTCACTTTCCCCaattaaaaataatatattttat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8721924 85 +  13128814 AGTTTTACTCCCCCCA--A--TTTTTTCTTGGATTAA---TTATTTTCCCATATAAG-TTTTTATTTTCCCCCattaaaaataatatatttta-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13967297 88 -  14377064 AGTTTTACTTTCCCCA--A--TTTTTTCTCAGATTAAAA-TTCTTCTCCTATATAAG-TTTTTACTTTCCCCCATTAAAAATAATATATTTTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9190146 88 -   9889416 AGTTTTACTTTCCCCA--A--TTTTTTCTCAGATTAAAA-TTATTCTCCCATGTAAG-TTTTTAGTTTCCCCCATTAAAAATAATATATTTTAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23738714 90 +  47401472 atttttactttctccaatA--TTTTTTCTCAGATTAATAGTTATTTTCTCATATAAA-T-TTTACTTTCCACAATTAAAAACAATACATTTTAT
i micMur3.chr31             I 609 I 2677
s otoGar3.GL873528           24906895 89 -  38779656 ATTTTAACTTTCACCA--C--TTTTTTCTCAGTTTAATACTTATTTTCCCATATAAA-CGTTTATTTTTTCCAATTAAAAATAATACATGTTAT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2476090 73 +   3081153 CTTTTTACTTTTCCCA--A--TTTC------------AATTGTTTTTGCAACTGAAA-TTTTTATTTTCC----TCATGAAATATACATTTTAT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18070382 813 +  39895921 I

a score=10859337.000000
s hg38.chr21_GL383579v2_alt    150436 1010 +    201197  
s panTro5.chr21               8769264 1010 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22308366 1010 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8291309 1010 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9315254 1013 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160729258 1014 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167363923 1014 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      4999962 1014 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13512547 1013 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20013250 1016 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3531999 1013 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5289142 1011 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26543707 1010 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8722009 1008 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13967385 1011 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9190234 1011 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24906984  973 -  38779656  
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2476163 1025 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23738804 2677 +  47401472 I
e canFam3.chr31              18070382  813 +  39895921 I

a score=4144.000000
s hg38.chr21_GL383579v2_alt    151446 15 +    201197 ACCTAttttcttttc
s calJac3.chr21              26544717 15 +  50472720 acctattttcttctt
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24907957 15 -  38779656 atctattttcctctc
i otoGar3.GL873528          C 0 I 720
s dasNov3.JH578070            2477188 15 +   3081153 GCATATTTGATTTCC
i dasNov3.JH578070          C 0 I 10054
e micMur3.chr31              23738804 2677 +  47401472 I
e cerAty1.NW_012002954v1     13513560  0 +  21915920 C
e macNem1.NW_012015021v1      5000976  0 -  30496662 C
e macFas5.chr3              167364937  0 - 192294377 C
e rheMac8.chr3              160730272  0 - 185818997 C
e cebCap1.NW_016107322v1     13968396  0 -  14377064 C
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9191245  0 -   9889416 C
e saiBol1.JH378168            8723017  0 +  13128814 C
e colAng1.NW_012120598v1      5290153  0 -  13750039 C
e manLeu1.NW_012103476v1      3533012  0 +   7543664 C
e gorGor5.CYUI01015003v1      8292319  0 -  13858734 C
e chlSab2.chr2               20014266  0 -  90373283 C
e nomLeu3.chr25               9316267  0 +  32716333 C
e panPan2.chr21              22309376  0 +  46275980 C
e panTro5.chr21               8770274  0 +  33445071 C

a score=91.000000
s hg38.chr21_GL383579v2_alt    151461 1 +    201197 t
s calJac3.chr21              26544732 1 +  50472720 t
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23738804 2677 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13513560 0 +  21915920 C
e macNem1.NW_012015021v1      5000976 0 -  30496662 C
e macFas5.chr3              167364937 0 - 192294377 C
e rheMac8.chr3              160730272 0 - 185818997 C
e cebCap1.NW_016107322v1     13968396 0 -  14377064 C
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9191245 0 -   9889416 C
e saiBol1.JH378168            8723017 0 +  13128814 C
e otoGar3.GL873528           24907972 720 -  38779656 I
e colAng1.NW_012120598v1      5290153 0 -  13750039 C
e manLeu1.NW_012103476v1      3533012 0 +   7543664 C
e gorGor5.CYUI01015003v1      8292319 0 -  13858734 C
e chlSab2.chr2               20014266 0 -  90373283 C
e nomLeu3.chr25               9316267 0 +  32716333 C
e panPan2.chr21              22309376 0 +  46275980 C
e panTro5.chr21               8770274 0 +  33445071 C

a score=0.000000
s hg38.chr21_GL383579v2_alt    151462 6642 +    201197  
e micMur3.chr31              23738804 2677 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13513560    0 +  21915920 C
e macNem1.NW_012015021v1      5000976    0 -  30496662 C
e macFas5.chr3              167364937    0 - 192294377 C
e rheMac8.chr3              160730272    0 - 185818997 C
e cebCap1.NW_016107322v1     13968396    0 -  14377064 C
e canFam3.chr31              18070382  813 +  39895921 I
e aotNan1.NW_018487195v1      9191245    0 -   9889416 C
e calJac3.chr21              26544733    0 +  50472720 C
e saiBol1.JH378168            8723017    0 +  13128814 C
e otoGar3.GL873528           24907972  720 -  38779656 I
e colAng1.NW_012120598v1      5290153    0 -  13750039 C
e manLeu1.NW_012103476v1      3533012    0 +   7543664 C
e gorGor5.CYUI01015003v1      8292319    0 -  13858734 C
e chlSab2.chr2               20014266    0 -  90373283 C
e nomLeu3.chr25               9316267    0 +  32716333 C
e panPan2.chr21              22309376    0 +  46275980 C
e panTro5.chr21               8770274    0 +  33445071 C

a score=130370.000000
s hg38.chr21_GL383579v2_alt    158104 16 +    201197 Acctattttcttttca
s panTro5.chr21               8770274 16 +  33445071 acctattttcttttca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22309376 16 +  46275980 acctattttcttttca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8292319 16 -  13858734 acctattttcttttca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9316267 16 +  32716333 acctattttcttttca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160730272 16 - 185818997 acctactctcttttca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167364937 16 - 192294377 acctactctcttttca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5000976 16 -  30496662 acctactctcttttca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13513560 16 +  21915920 acctactctcttttca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20014266 16 -  90373283 acctactctcttttcg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3533012 16 +   7543664 acctactctcttttaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5290153 16 -  13750039 acctactctcttttca
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8723017 16 +  13128814 acctactttcctttta
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13968396 16 -  14377064 acctactttcttctta
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9191245 16 -   9889416 acctactttcttctta
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23738804 2677 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e calJac3.chr21              26544733  0 +  50472720 C
e otoGar3.GL873528           24907972 720 -  38779656 I

a score=5338972.000000
s hg38.chr21_GL383579v2_alt    158120 586 +    201197  
s panTro5.chr21               8770290 586 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22309392 586 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8292335 585 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9316283 602 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160730288 565 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167364953 565 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5000992 565 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13513576 565 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20014282 561 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3533028 565 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5290169 565 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26544733 586 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8723033 589 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13968412 582 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9191261 590 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23738804 2677 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24907972 720 -  38779656 I

a score=1968707.000000
s hg38.chr21_GL383579v2_alt    158706 184 +    201197 ttctcttgggtaggttcatttatgtgtcttcattctgtggccagatgcagttagctagttgggtatgtttctggtgatTGTTAGCAGCCAACTAGGAGCAGGTGCACTACATTTCTGTAACAATTTTACAGGATTCTTCTCATGGAAGCAGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
s panTro5.chr21               8770876 184 +  33445071 ttctcctgggtaggttcatttatgtgtcttcattctgtggccagatgcagttagctagttgggtatgtttctggtgatTGTTAGCAGCCAACTAGGAGCAGGTGCACTACATTTCTGTAACAATTTTACAGGATTCTTCTCATGGAAGCAGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22309978 184 +  46275980 ttctcctgggtaggttcatttatgtgtcttcattctgtggccagatgcagttagctagttgggtatgtttctggtgatTGTTAGCAGCCAACTAGGAGCAGGTGCACTACATTTCTGTAACAATTTTACAGGATTCTTCTCATGGAAGCAGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8292920 184 -  13858734 ttctcttgggtaggttcatttatgtgtctttattctgtggccagatgcagttagctagttgggtatgtttctggtgatTGTTAGCAGCCAACTAGGAGCAGGTGCACTACATTTCTGTAACAATTTTACAGGATTCTTTTCATGGAAGCAGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9316885 183 +  32716333 ttctcttgggta-tttcatttatgtgtcttcattctgtggccagatgcagttagctagttgggtatgtttctggtgattgttagcagccaactagtAGCAGGTGCACTACATTTCTGTAACAATTTTACAGGGTTCTTCTCAGGGAAGCAGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160730853 184 - 185818997 ttctcttggataggtttatttgtgtgtctttattctgtggccagatgcagttagctagttgggtatgtttctggtgattcttagctgccagctagGAGCAGGTGCACTACATTTCTGTAAATATTTTATAGGATTCTTGTCATGGAAGTGGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167365518 184 - 192294377 ttctcttggataggttcatttgtgtgtctttattctgtggccagatgcagttagctagttgggtatgtttctggtgattcttagctgCCAACTAGGAGCAGGTGCACTACATTTCTGTAAATATTTTACAGGATTCTTGTCATGGAAGTGGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5001557 184 -  30496662 ttctcttgggtaggttcatttgtgtgtctttattctgtggccagatgcagttagctagttgggtatgtttctggtgattcttagctgCCAACTAGGAGCAGGTGCACTACATTTCTGTAAATATTTTACAGGATTCTTGTCATGGAAGTGGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13514141 184 +  21915920 ttctcttgggtaggttcatttgtgtgtctttactctgtggccagatgcagttagctagttgggtatgtttctggtgattcttagctgccaactggGAGCAGGTGCACTACATTTCTGTAAATATTTTACAGGATTCTTCTCATGGAAGTGGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20014843 183 -  90373283 -CATCTGAGGTAGGTTCATTTGTGTGTCTTTATTCTGTGGCCAGATGCAGTTAGCTAGTTGGGTATGTTTCTGGTGATTCTTAGCTGCCAACTAGGAGCAGGTGCACTACATTTCTGTAAATATTTTACAGGATTCTTCTCATGGAAGCGGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3533593 184 +   7543664 ttctcttgggtaggttcatttgtgtgtctttattctgtggccagatgcagttagctagttgggtatgtttctggtgattcttagctgCCAACTAGGAGCAGGTGCACTACATTTCTGTAAATATTTTACAGGATTCTTCTCATGGAAGTGGTGTCAGGGATCCTAAAAACACCAAGAGGAAGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5290734 184 -  13750039 TTCTCTTGGGTAGGTTCATTTGTGTGTCTTTATTCTGTGGCCAGATGCAGTTAGCTAGTTGGGTATGTTTCTGGTTATTCTCAGCTGCCAACTAGGAGCAGGTGCACTACATTTCTGTAAATATTTTACAGGATTCTTCTCATGGAAGCGGTGTCAGGGATCCTAAAAACAGCAAGAGGAAGAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26545319 184 +  50472720 ttctcttgagtaggttcatttatgtgtatgcgttctgtggccagatgcagttagctagtcgggtatgattctggtgattgttagctgCCAATTAGGAGCAAGCACACTCCATTTCCATAACAGTTTTACAGGATTCTTCTCATGGAAGCAATGCCAGTGATCCTAAAAGCAGCAAGAGGAAGAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8723622 181 +  13128814 ttttcttgaataggttcatttatgtgtatgtatcctgtggccagatgcagttagctagttggctatgattctggtgattggtagctgCCAATTAGGAGCAAGCACA---CATTTCCATAAGAATTTTACAGGATTCTTCCCATGGAAGCAATGTCAATGATGCTAAAAACAGCAAGAGGAAGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13968994 184 -  14377064 ttctcttgagtaggttcatttatgtgtatgcattctgtggccagatgcagttagctagttgggtatgattctggtgattgttagctgCCAATTAGGAGCAAGCACACTACATTTCCATAACAATTTTACAGGATTCTTCCCATGGAAGGAGTGTCAGTGATCCTAAAAACACCAAGAGGAAGAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9191851 184 -   9889416 ttctcttgagtaggttcatttatgtgtatgcattctgtggccagatgcagttagctagttgggtatgattctggtgattgttagctgCCAATTAGGAGCAAGCACACTATATTTCCATAACAATTTTACAGGATTTTTCTCATGGAAGCGATGTCAGTGATCCTAAAAACAGCAAGAGAAAGAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23741481 177 +  47401472 ttctcttgggtaggttcatttatgtgcattcattctatggccagctgtagttaggtaggtgAGCATGCTTCTGATGATTGTTAGC-GTCAG------GCAACTGGGCTACATTTCTGTAATGATTTTATAGGATTCTGCTCATGGAAGCAGTGGCAGAGATCCTAAGGACAGCAAGGGGAAGAT
i micMur3.chr31             I 2677 I 294
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24907972 720 -  38779656 I

a score=1201283.000000
s hg38.chr21_GL383579v2_alt    158890 137 +    201197 AAAACCTTAAAGACCT-AGCCCTTTTCTCCAGCCTCAGGTTTTGTTATGACTGCTATCGTACTACTAAACCAAGTCAGTATATTGTCAGCCTCATCA--------GTGTGGGTATGACCAGCTGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
s panTro5.chr21               8771060 137 +  33445071 CAAACCTTAAAGACCT-AGCCCTTTTCTCCAGCCTCAGGTTTTGTTATGACTGCTATCGTACTACTAAACCAAGTCAGTATATTGTCAGCCTCATCA--------GTGTGGGTATGACCAGCTGTGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310162 137 +  46275980 CAAACCTTAAAGACCT-AGCCCTTTTCTCCAGCCTCAGGTTTTGTTATGACTGCTATCGTACTACTAAACCAAGTCAGTATATTGTCAGCCTCATCA--------GTGTGGGTATGACCAGCTGTGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293104 137 -  13858734 CAAACCTTAAAGACCT-AGCCCTTTTCTCCAGCCTCAGGTTTTGTTATGACTGCTATCGTACTACTAAACCAAGTCAGTATATTGTCAGCCTCATCA--------GTGTGGGTATGACCAGCTGTGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317068 137 +  32716333 CAAACCTTAAAGACCT-AGACCTTTTCTCCAGCCTCAGGTTTTGTTATGACTGCTATCGTACTACTGGACCAAGTCAGTATATTGTCAGCCTCACCA--------GTGTGGGTATGACCAGCTGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731037 137 - 185818997 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTATTGTCCCACTGGTTCAAGTCAGTATATTGTCAGCCTCATCA--------GTGGGGGTGTGACCAGCCGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i rheMac8.chr3              C 0 I 56
s macFas5.chr3              167365702 137 - 192294377 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTATTGTCCCACTGGTTCAAGTCAGTATATTGTCAGCCTCATCA--------GTGGGGGTGTGACCAGCCGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i macFas5.chr3              C 0 I 56
s macNem1.NW_012015021v1      5001741 164 -  30496662 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTATTGTCCCACTGGTTCAAGTCAGTATATTGTCAGCCTCATCA--------GTGGGGGTGTGACCAGCCGAGAATGTGGATCCA--------------------------------TGGAGGTATTAACAGCCTCATCAGTGTGGGTGTGG
i macNem1.NW_012015021v1    C 0 I 29
s cerAty1.NW_012002954v1     13514325 137 +  21915920 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTGTTGTCCCACTGGTTCAAGTCAGTATATTGTCAGCCTCATCA--------GTGGGGGTGTGACCAGCCGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i cerAty1.NW_012002954v1    C 0 I 56
s chlSab2.chr2               20015026 137 -  90373283 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTATTGTCCCACTGGTCCAAGTCAGTATATTGTCAGCCTCATCA--------GTGCGGGTGTGACCAGCCGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i chlSab2.chr2              C 0 I 402
s manLeu1.NW_012103476v1      3533777 137 +   7543664 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTATTGTCCCACTGGTTCAAGTCAGTATATTGTCAGCCTCATCA--------GTGGGGGTGTGACCAGCCGAGAATGTGGATCCA----------------------------------------------------------TGGAGGT-A
i manLeu1.NW_012103476v1    C 0 I 56
s colAng1.NW_012120598v1      5290918 193 -  13750039 CAAACGCTAAAGACCT-AGCCCTTTTCTCCAGCCTCGGGTTTCGTTATGACTGCTATTGTCCCACTGGTCCAAGTCAGTATATTGTCAGCCTCATCA--------GTGGGGGTGTGACCAGCCGAGAATGTGGATCCATGGAGGTATTAACAGCCTCATCAGTGTGGGTATGGCCAGCTGAGAATGTGGATCCA--TGGAGGT-A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26545503 138 +  50472720 GGAACCCCAAAGGCCTAAACCTTTTTCTCTAGCCTTGGGTTTTGCTATGACGGCTTTTTCACCACTGGACCAAGTCAGTATATTGTAAGCCTTATCA--------GTGTGGGTGTGACCAGCCAACAATGTGGATCCA----------------------------------------------------------TAGATGT-A
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8723803 138 +  13128814 GGAACCCCAAAGTCCTAAACCTTTTTCTCCAGCCTTGGGTTTTGCTATGACGGCTATTTCACCACTGGACCAAGTCAGTATATTGCAAGCCTTATCA--------GTGTGGGTGTGACCAGCCAAGAATGTGGATCCA----------------------------------------------------------TGGATGT-A
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969178 146 -  14377064 GGAACCCCAAAGACCTAAACCTTTTTCTTCAGCCTTGGGTTTTGCTATGATGGCTATTTCACCACTGGACCAAGTCAGTATATTGCAAGCCTTATCAGTGTGTGTGTGTGGATGTGACCAGCCAAGAATGTGGATCCA----------------------------------------------------------TGGATGT-A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192035 138 -   9889416 GGAACCCCAAAGACCTAAACCTTTTTCTCCAGGCTTGGGTTTTGCTATGACAGCTATTTCACCACTGGACCAAGTCAGTATATTGCAAGCCTTATCA--------GTGTGGGTGTGACCAGCCAAGAATGTGGATCCA----------------------------------------------------------TGGATGT-A
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23741658 294 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24907972 720 -  38779656 I

a score=1570969.000000
s hg38.chr21_GL383579v2_alt    159027 192 +    201197 TTAACAAACTATGGTACATTACTGCAACcctatatcaaactgactcccatttgataatc---ctttttatctcactg-----------------aacaaaataaaaacttgtagtaaagatgagaatttgcataaataaccattatcttgtctgttcaacctCAGATATTA-----TATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
s panTro5.chr21               8771197 192 +  33445071 TTAACAAACTATGGTACATTACTGCAACcctatatcaaactgactcccacttgataatc---ctttttatctcactg-----------------aacaaaataaaaacttgtagtaaagatgagaatttgcataaataaccattatcttgtctgttcaacctCAGATATTA-----TATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310299 192 +  46275980 TTAACAAACTATGGTACATTACTGCAACcctatatcaaactgactcccacttgataatc---ctttttatctcactg-----------------aacaaaataaaaacttgtagtaaagatgagaatttgcataaataaccattatcttgtctgttcaacctCAGATATTA-----TATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293241 192 -  13858734 TTAACAAACTATGGTACATTACTGCAACcctatatcaaactgactcccacttgataatc---ctttttatctcactg-----------------aacaaaataaaaacttctagtaaagatgagaatttgcataaataaccattatcttctctgttcaacctCAGATATTA-----TATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317205 197 +  32716333 TTAACAAACTATGGTACATTACTGCAACCCTATATCAAATTGACTCCCATTTGATAATC---CTCTTTATCTCACTG-----------------AACAAAATAAAAACTTGTAGTAAAGATGATAATTTGCATAAATAACCATTATCTTGTCTGTTCAACCTCAGATATTATATTTTATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731230 212 - 185818997 TTAACGAAGTGTGGTACATTACTGAAAACCCATATCTAACTGATTCCCACTTGAAAATCCTTCTTCTTATCTCACAG-----aaaaaacaaacaaacaaaaaaaaaaCTTGTAGTAGAGATGAGAATTGGCATAAATAACCATTATCTTGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i rheMac8.chr3              I 56 C 0
s macFas5.chr3              167365895 210 - 192294377 TTAACGAAGTGTGGTACATTAGTGAAAACCCATATCCAACTGATTCCCACTTGAAAATC---CTTTTTATCTCACAG----aaaaaaaaaaaaaaaaaaaaaaaaaaCTTGTAGTAGAGATGAGAATTGGCATAAATAACCATTATCTTGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i macFas5.chr3              I 56 C 0
s macNem1.NW_012015021v1      5001934 208 -  30496662 TTAACGAAGCGTGGTACATTACTGAAAACCCATATCCAACTGATTCCCACTTGAAAATCCTTCTTTTTATCTCACAG---------AAAAAAAAAAAAGAAAACAACCTTGTAGTAGAGATGAGAATTGGCATAAATAACCATTATCTTGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i macNem1.NW_012015021v1    I 29 C 0
s cerAty1.NW_012002954v1     13514518 217 +  21915920 TTAACGAAGTGTGGTACATTACTGAAAACCCATATCCAACTGATTCCCACTTGAAAATCCTTCTTTTTATCTCacagaaaaaaaaacaaaaacaaaaacaaaaaaaCCTTGTAGTAAAGATGAGAATTGGCATAAATAACCATTATCTTGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i cerAty1.NW_012002954v1    I 56 C 0
s chlSab2.chr2               20015565 208 -  90373283 TTAACAAAGTGTGGTACATTACTGAAAACCCATATCAAACTGATTCCCACTTGAAAATCCTTCTTTTTATCTCACAG---------AaaaaacaacaacaacaacaacTTGTAGTAGAGATGAGAATTGGCATAAATAACCATTAACTTGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i chlSab2.chr2              I 402 C 0
s manLeu1.NW_012103476v1      3533970 211 +   7543664 TTAACGAAGTGTGGTACATTACTGAAAACCCATATCCAACTGATTCCCACTTGAAAATTCTTCTTTTTATCTCACAG------aaaaaaaaaaaaaaaaaaaaaaaaCTTGTAGTAGAGATGAGAATTGGCATAAATAACCATTATCTTGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i manLeu1.NW_012103476v1    I 56 C 0
s colAng1.NW_012120598v1      5291111 200 -  13750039 TTAACAAAGTGTGGTACATTACTGAAAACCCATATCAAACTGATTCCCACTTGAAAATC---CTTTTTATCTCACAG--------------AAAAAAAAAAAAAAAACTTGTAGTAGAGATGAGAATTGGCATAAATAACCATTATCTGGTCTATTAAACTTCAGCTATTGTATTTTATCATTTGAAAAACAATTAATGATAGGAAAGTGGAAAACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26545641 195 +  50472720 TTAATGAACTACAGCACATTACTGCAA-CGCATATCAAAGGGactcccatttgataatcattcttttcatctcacaa---------aaaacaaaacttgtagtagagatgaga------------atttccacaaataaccattatcttgtctatttaacctCAGATACTGTATTTTATCATTTGAAAAATACTTAATGATAGAAAAGTTGATAACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8723941 193 +  13128814 TTAACAAACTACAGTACGTTACTGCAA-CACATATCAAACTGACTCCCATTTGATAATCACTCTTTTTATCTCACAA---------AAAACAAAAACAAAATCAAAACTTGTA--------------TTCCTCAAATAACCATTATCTTGTCTATTTAACCCCAGATATTGTATTTTATCATTTGAAAAATAATGAATGAAACAAAAGTTGAAAACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969324 194 -  14377064 TTAACAA-------------ACTGCAA-CACATATCAAACTGACTCCCATTTGATAATCACTCTTTTTATCTCACAG---------AAAACAAAAACAAAAACAAAACTTGTAGTAGAGATAAGAATTTCCGCAAATAACCATTATCTTGTCTACTTAACCTCAGATGCTGTATTTTATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192173 207 -   9889416 TTAACAAACTACGGTACATTACTGCAA-CGCATATCAAACTGACTCCCATTTGATAATCATTCTTTTTACCTCACAA---------AGAACCAAAACAAAAACAAAACTTGTAGTAGAGATGAGAATTTCTGCAAATAACCATTATCTTGTCTATTTAACCTCAGATATTGTATTTTATCATTTGAAAAATAATTAATGATAGGAAAGTTGAAAACA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23741658 294 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24907972 720 -  38779656 I

a score=1576261.000000
s hg38.chr21_GL383579v2_alt    159219 160 +    201197 AAATGGCAGTAGTCAAATTAGTTTCTGTGGCTCCAGCATACAACCCATTCTATTTTCTTCAG-TCCACGAATGGCACCACCAACAGTTACTTTGCCTCAAGTATGGGACAATGCAGCTAATACCAAAGTCCTGTTC----AAAAGCCACACTTACAAAGTTAAAG
s panTro5.chr21               8771389 160 +  33445071 AAATGGCAGTAGTCAAATTAGTTTCTGTGGCTCCAGCATACAACCCATTCTATTTTCTTCAG-TCCACGAATGGCACCACCGACAGTTACTTTGCCTCAAGTATGGGACAATGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310491 160 +  46275980 AAATGGCAGTAGTCAAATTAGTTTCTGTGGCTCCAGCATACAACCCATTCTATTTTCTTCAG-TCCACGAATGGCACCACCGACAGTTACTTTGCCTCAAGTATGGGACAATGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293433 160 -  13858734 AAATGGCAGTAGTCAAATTAGTTTCTGTGACTCCAGCATACAACCCATTCTATTTTCTTCAG-TCCACGAATGGCACCACCGACAGTTACTTTGCCTCAAGTATGGGACAATGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317402 155 +  32716333 AAATGGCAGTAGTCAAATTAGTTTCTGTGGCTCCAGCATACAATCCACTCTA-----TTCAG-TCTACGAATGGCACCACCGACAGTTACTTTGCCTCAAGTATGGGACAATGCAGCTAATACCAAAGTCCTATTC----AAAAGTCACACTTATAAAGTTAAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731442 160 - 185818997 AAATGGCAGTCGTCAAGTTAGTTTCTATGGCTCCGGCGTACAACCCATTCCACTTTCTTCAG-TCTAGGAATGGCACCACTGACAGTTACTTTGCCTCACGTATGGAGCAAGGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366105 160 - 192294377 AAATGGCAGTCGTCAAATTAGTTTCTATGGCTCCGGCGTACAACCCATTCCACTTTCTTCAG-TCTAGGAATGGCACCACCGACAGTTACTTTGCCTCACGTATGGAGCAAGGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002142 160 -  30496662 AAATGGCAGTCGTCAAATTAGTTTCTATGGCTCCGGCGTACAACCCATTCCACTTTCTTCAG-TCTAGGAGTGGCACCACCGACAGTTACTTTGCCTCACGTATGGAGCAAGGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13514735 160 +  21915920 CAATGGCAGTCGTCAAATTAGTTTCTATGGCTCCGGCGTACAACCCATTCCGCTTTCTTCAG-TCTAGGAATGGCACCACCGACAGTTACTTTGCCTCACGTATGGAGCAAGGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20015773 159 -  90373283 AAATGGCAGTCGTCAAATTAGTTTCTATGGCTCCGGCATACAACGCATTCC-CTTTCTTCAG-TCTAGGAATGGCACCACCGACAGTTACTTTGCCTCACCTATGGAGCAAGGCAGCTAATACCAAAGTCTTATTC----AAAAGCCACACTTACAAAGTTAAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534181 160 +   7543664 AAATGGCAGTCGTCAAATTAGTTTCTATGGCTCCGGCGTACAATCCATTCTGCTTTCTTCAG-TCTAGGAATGGCACCACCGACAGTTACTTTGCCTCACGTATGGAGCAAGGCAGCTAATACCAAAGTCCTATTC----AAAAGCCACACTTACAAAGTTAAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291311 164 -  13750039 AAATGGCAGTAGTCAAATTAGTTTCTATGGCTCCGGCGTACAACCCATTCCACTTTCTTCAG-TCTAGGAATGGCACCACCGACAGTTACTTTGCCTCACGTATGGAGCAATGCAGCTAATACCAAAGTCCTATTCAAAAAAAAGCCACGCTTACAAAGTTAAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26545836 160 +  50472720 AAACGGCAGCAGTCAGGCTGGTTTCTATGGCTCTAGGATACAGCCCATTCCACTTTCTTTAGGTCCAGGAACGTCACTACCAACAGTTACATTGCTTCAAATATGGGACCATGCAGCTAATACCAAAGACCTATTC----AAA-GCCACAGTCACAAAGTTAGAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724134 161 +  13128814 AAATGGCAGTAGTCAAACTGGTTTCTATGGTTGTAGGATACTGCCCATTCCACTTTCTTTAGGTCCTGGAATGGCACCACCGACAGTTACATTGCCTCAAATATGAGACAATGCAGCTAATAGCAAAGACCTATTC----AAAGGCCACAGTCACAAAGTTAAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969518 161 -  14377064 AAATGGCAGTAGTCAAACTGGTTTCTATGGCTCTAGGATACAGCCCATTCTGCTTTCTTTTGGTCCAGGAATGGCACCACCGACAGTTACATTGCCTCAAATATGGGACAATGCAGCTAATACCCAAGACCTATTC----AAAAGCCACAGTCACAAAGTTAAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192380 161 -   9889416 AAATGGCAGTAGTCAAACTGGTTTCTATGGCTCTAGGATACAGCCCATTCCACTTTCTTTAGTTCCAGGAATGGCACCACCAACAGTCACATTGCCTCAAATATGGGACAATGCAGCTAATACCAAAGACCTATTC----AAAAGCCACAGTCACAAAGTTAAAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24908692 160 -  38779656 AAATGGTAGTAGTCAAATCATTTCTAACAGCGCCGTCATAGAGCTCATTCTGCTTTCTTCAG-ATAACTAGAAGCACCACTGACATTTACCCTGCCCCTGATGGGGTACAATGCATCTAACACCAAAGGTCTATTC----AAAAACCGGAAGTACACTGTTCAGG
i otoGar3.GL873528          I 720 C 0
e micMur3.chr31              23741658 294 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=297821.000000
s hg38.chr21_GL383579v2_alt    159379 25 +    201197 TAAATTGAGCCTTCTATATTCAGTT
s panTro5.chr21               8771549 25 +  33445071 TAAATTGAGCCTTCTATATTCAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310651 25 +  46275980 TAAATTGAGCCTTCTATATTCAGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293593 25 -  13858734 TAAATTGAGCCTTCTATATTCAGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317557 25 +  32716333 TAAATTGAGCCTTCTATATTCAGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731602 25 - 185818997 TAAATTGAGCCTTCTATATTCAGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366265 25 - 192294377 TAAATTGAGCCTTCTATATTCAGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002302 25 -  30496662 TAAATTGAGCCTTCTATATTCAGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13514895 25 +  21915920 TAAATGGAGCCTTCTATATTCAGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20015932 25 -  90373283 TAAATGGAGCCTTCTATATTCAGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534341 24 +   7543664 TAAATTGAGCCTTCT-TATTCAGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291475 23 -  13750039 TAAATTGAGCCTTCTATATTCAG--
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26545996 25 +  50472720 TAAATTGAGCTTTCTATATTCCGTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724295 25 +  13128814 TAAATTGAGCTTTCTATATTCAGTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969679 25 -  14377064 CAAATTGAGCTTTCTATATTCAGTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192541 25 -   9889416 TAAATGGAGCTTTCTATATTCAGTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23741952 25 +  47401472 TAAATTGAGCCTTCTATATTCAGTT
i micMur3.chr31             I 294 I 97
s otoGar3.GL873528           24908852 24 -  38779656 -TATTTGAGTGTTCTCTATTCAGTT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1153855.000000
s hg38.chr21_GL383579v2_alt    159404 103 +    201197 CTTGTTTCCTTACGCTCTTGCTCCTGTATCTTAATGAGTGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
s panTro5.chr21               8771574 103 +  33445071 CTTGTTTCCTTACGCTCTTGCTCCTGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310676 103 +  46275980 CTTGTTTCCTTACGCTCTTGCTCCTGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293618 103 -  13858734 CTTGTTTCCTTACGCTCTTGCTCCTGGATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317582 103 +  32716333 CTTGTTTCCTTACAGTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731627 103 - 185818997 CTTGTTTCTTTACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366290 103 - 192294377 CTTGTTTCTTTACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTACAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002327 103 -  30496662 CTTGTTTCTTTACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13514920 103 +  21915920 CTTGTTTCTTTACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20015957 103 -  90373283 CTTGTTTCTTCACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATGGCTTAATAAACTCTGCCTACTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534365 103 +   7543664 CTTGTTTCTTTACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGTGACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291498 102 -  13750039 -TTGTTTCTTTACACTCTTGCTCATGTATCTTAATGAATGTTCTATTAATTTTGCAGCAACTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546021 103 +  50472720 CTTGTTTCCTTACACTTTTGCTCATATATCTTAATGAATGTTCTATTAATTTTGCAGTCATTTTCTTCCTTAATGTTCATTGCTTAATAAACTCTGCCTACTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724320 103 +  13128814 CTTGTTTCCTTACACTTTTGTTCATATATCTTAATGAATGTTCTATTCATTTTGCAGTGATTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969704 102 -  14377064 CTTGTTTCCTTACACTTTTGCTCATATATCTTAATGAATGTTCTATTAATTTTGCAGCGATTTTCTTCCTTAATGTT-ATAGCTTAATAAACTCTGCCTACTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192566 103 -   9889416 CTTGTTTCCTTACACTTTTGCTCATATATCTTAATGAATGTTCTATCAATTTTGCAGTGATTTTCTTCCTTAATGTTCATAGCTTAATAAACTCTGCCTACTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24908876 102 -  38779656 CTTGTTCCTTTACATTTTTGTTCAAGTGCTTCAGTGAAAGTCTTAATAATTTTGCAGTGATTTT-TTCCTCATTGTTCATGGCATCATAGACTCTGGCAACTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23741977  97 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=757380.000000
s hg38.chr21_GL383579v2_alt    159507 61 +    201197 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAGAGCATGCATA
s panTro5.chr21               8771677 61 +  33445071 ATTTAAAACCTAATCAATATTCACTAA---GAGTTTTCTAATTATTTAAATAAGAGCATGCATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310779 61 +  46275980 ATTTAAAACCTAATCAATATTCACTAA---GAGTTTTCTAATTATTTAAATAAGAGCATGCATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293721 61 -  13858734 ATTTAAAACCTAATCAACATTCACTAA---GTGTTTGCTAATTATTTAAATAAGAGCATGCATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317685 61 +  32716333 ATTTAAAACCTAATCAATATTCACCAA---GTGTTTGCTAATTATTTAAGTAAGAGCATGCATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731730 61 - 185818997 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAAAGCATACATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366393 61 - 192294377 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAAAGCATACATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002430 61 -  30496662 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAAAGCATACATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515023 61 +  21915920 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAGAGCATACATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016060 61 -  90373283 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTACTAATTATTTAAATAAGAGCATACATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534468 61 +   7543664 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAGAGCATACATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291600 61 -  13750039 ATTTAAAACCTAATCAATATTCACTAA---GTGTTTGCTAATTATTTAAATAAGAGCATACATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546124 61 +  50472720 ATTTAGCACCTAATCAATATTCACCAA---GTGTTTGCTAATTATTTAAATAAGAGCATGCATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724423 61 +  13128814 ATTTAAAACCTAATCAATATTCACCAA---GTGTTTGCTAATTATTTAAATAAGAGCATGCATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969806 61 -  14377064 ATTTAAAACCTAATCAATATTCGCCAA---GTGTTTGCTAATTATTTAAATAACAGCAGGCATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192669 61 -   9889416 ATTTAAAACCTAATCAATATTCACCAA---GTGTTTGCTAATTATTTAAATAAGAGCATACATA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23742074 64 +  47401472 ATTTAAACCCTAGTCAATATTCAATAATAGGTATTTGCTTATTATTTAAATAAGAGTATGCATA
i micMur3.chr31             I 97 I 38
s otoGar3.GL873528           24908978 64 -  38779656 ATTTAAACTCTAATCAATACTCAATAATAAGTGTTTGCTCATTATGTAAATAAGGGCATACATA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=373939.000000
s hg38.chr21_GL383579v2_alt    159568 33 +    201197 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
s panTro5.chr21               8771738 33 +  33445071 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310840 33 +  46275980 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293782 33 -  13858734 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317746 33 +  32716333 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731791 33 - 185818997 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366454 33 - 192294377 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002491 33 -  30496662 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515084 33 +  21915920 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016121 33 -  90373283 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534529 33 +   7543664 ATTTTGGGGAGAACTAAATCTGATG--ACAATTTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291661 33 -  13750039 ATTTTAGGGAGAACTAAATCTGATG--ACAATTTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546185 35 +  50472720 ATTTTGAAGAGAAGTAAATCTGATGACACAATTTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724484 33 +  13128814 ATTTTGGGGAGAAGTAAATCTGATG--ACAATTTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969867 33 -  14377064 ATTTTGGGGAGAAGTAAATCTGATG--ACAATTTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192730 33 -   9889416 ATTTTGGGAAGAAGTAAATCTGATG--ACAATTTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24909042 32 -  38779656 -TTTTGAAAGCTACTAAATCTAATG--GCAATTTG
i otoGar3.GL873528          C 0 I 6
e micMur3.chr31              23742138 38 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1934442.000000
s hg38.chr21_GL383579v2_alt    159601 171 +    201197 ATGGAAATGTAGTTTATTACTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACATGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGAAAAGGGGGATAACGACCTAACTTTGTGGATGTGATTTTTTGTTTGCT
s panTro5.chr21               8771771 171 +  33445071 ATGGAAATGTAGTTTATTACTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTGTTTTATTTTGAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGAAAAGGGGGATAACGACCTAACTTTGTGGATGTGATTTTTTGTTTGCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22310873 171 +  46275980 ATGGAAATGTAGTTTATTACTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGAAAAGGGGGATAACGACCTAACTTTGTGGATGTGATTTTTTGTTTGCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293815 171 -  13858734 ATGGAAATGTAGTTTATTACTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGGAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGAAAAGGGGGATAAGGACCTAACTTTGTGGATGTGATTTTTTGTTTGCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317779 171 +  32716333 ATGGAAATGTAGTTTATTACTGCTCTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGAAAAGGGGGATAATGACATAACTTTGTGGATATGATTTTTCGTTTGCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731824 171 - 185818997 ATGGAAATGTAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATACTATTTTTTGTTTACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366487 171 - 192294377 ATGGAAATGTAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATACTATTTTTTGTTTACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002524 171 -  30496662 ATGGAAATGTAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATACTATTTTTTGTTTACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515117 171 +  21915920 ATGGAAATGTAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGAAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATACTATTTTTTGTTTACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016154 171 -  90373283 ATGGAAATGTACTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGGAAGAATTAATACGTATTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATACGATTTTTTGTTTACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534562 171 +   7543664 ATGGAAATGTAGTTTATTATCGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCTCATTTGTGGAAAGAATTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATACTATTTTTTGTTTACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291694 171 -  13750039 ATGGAAATGTAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTATGTGTGGCTCATTTGTGGGAAGAATTAATACATGTTTTATTTTAAAATGGCTAGGATTAGTA------------AAGAAACATCCCTGATAAGGGGGATAATGACATAACTTTGTGGATATGATTTTTTGTTTACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546220 180 +  50472720 ATGGAAATGAAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCCCATTTGTGGGAAGAGTTAATACGTGTTTTATTTTAAAATGGCTAGGATTAGTT--AAAAAAAAAAAAAAAGAAACCCTAATAAGGAGGATAACAACACAATTTTGTGGATGTGAC-TTTTGTTGACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724517 183 +  13128814 ATGGAAATGAAGTTTATTATTGCTTTAGGACTGAGGAT-TTCATTCTGTGTGTGGCCCATTTGTGGGAATAGTTAATATGTGTTTTATTTTAAAATGGCTAGGATTAGTTaaaaaaaaaaaaaaaaaaaaaaCCTGATAAGGAGGATAACAACACAATTTTGTGGATGTGACTTTTTGTTTACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13969900 165 -  14377064 ATAGAAATGAAGTTTATTATTGC-TTAGGACTGAGGAT-TTCATTCTGTGTGTGGCCCATTTGTGGGAATAGTTAATAGG------------AAATGGCTAGGATTA-----GaaaaaaaaaaaaaaaaaaCCCTGATAAGGAGGATAACAACACAATTTTGTGGATGTGACTTTTTGTTTACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192763 178 -   9889416 ATGGAAATGTAGTTTATTATTGTTTTAGGACTGAGGAT-TTCATTCTGTTTGTGGCCCATTTGTGGGAATAGTTAATATGTGTTTTATTTTAAAATGGCTAGGATTAGTC-----AAAAAAAAAAAAAACACTCTGATAAGAGGGATAACAACACAATTTTGTGGATGTGACTTTTTGTTTACT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23742176 170 +  47401472 ATGGAAATGTAGTTTGTTATTTCTTTAGGACTGAGGAA--TTTTTCTGTGTATGGCGTATTTGTGGGAATTATTAATAGATGTTTTATTTTAAAATGGCTAGGATTAATG------------AAGAAACATCCCTAACAAAGGGGATAAAAGCATGACTTTGTGGCAGTAATTTTTTGTTCACC
i micMur3.chr31             I 38 C 0
s otoGar3.GL873528           24909080 172 -  38779656 GTGGAAATGTAGTTTGTTATTGCCTAAGGACTGAAGGAATTTTTTCTGTGTATAGCTTATTTGAGGGAATCATTAATACTTGTTTTATTTTAAAATAGTTAGGATTAATG------------AATAGACATCCATAGTAAGGAGGATAGAATCATCAGTTTGTGGATGTAATTATTTGATCACC
i otoGar3.GL873528          I 6 I 949
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1251674.000000
s hg38.chr21_GL383579v2_alt    159772 115 +    201197 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TTAAACAGAGAGATACTACAACTATGGA----G---TTTTTTTAACTGTTGCAATCTATGAAATGGTATCTCTCTATACTTTCTCAAATA
s panTro5.chr21               8771942 119 +  33445071 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TTAAACAGAGAGATACTACAACTATGGAAAGAG---TTTTTTTAACTGTTGCAATCTATGAAATGGTATCTCTCTATACTTTCTCAAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311044 119 +  46275980 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TTAAACAGAGAGATACTACAACTATGGAAAGAG---TTTTTTTAACTGTTGCAATCTATGAAATGGTATCTCTCTATACTTTCTCAAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8293986 120 -  13858734 TATGATTTTTGTAGTGAATATAGGCTCTGAAA-TTAAACAGAGAGATACTACAACTATGGAAAGAG--TTTTTTTTAACTGTTGAAATCTATGAAATGGTATCTCTCTATACTTTCTCAAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9317950 117 +  32716333 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TTAAAC--AGAGACACTACAACTATGGAAAGAG---TTTTTTTAACTGTTGCAGTCTATGAAATGGTATTTCTCTATACTTTCTCAAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160731995 121 - 185818997 TATGATTTTTATAATGAATATAGGCTCTGAAA-TT-AACAGAGAGGTACTACAACTATGGAAAGAGGTTTTTTTTTAACTGTTGCAATCTATGAAATGGCATCTCTTTATGCTTTCTCGAGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366658 120 - 192294377 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TT-AACAGAGAGGTACTACAACTATGGAAAGAG-TTTTTTTTTAACTGTTGCAATCTATGAAATGGCATCTCTTTGTGCTTTCTCGAGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002695 121 -  30496662 TATGATTTTTATAGTGAATATAGGCTCTGATA-TT-AACAGAGAGGTACTACAACTATGGAAAGAGTTTTTTTTTTAACTGTTGCAATCTATGAAATGGCATCTCTTTATGCTTTCTCGAGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515288 120 +  21915920 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TT-AACAGAGAGGTACTACAACTATGGAAAGAG-GTTTTTTTTAACTGTTGCAATCTATGAAATGGCATCTCTTTATGCTTTCTCGAGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016325 120 -  90373283 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TT-AACAGAGAGGTACTACAACTATGGAAAGAG-GTTTTTGTTAACTGTTGCAATCTATGAAATGGCATCTCTTTATGCTTTCTTGAGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534733 120 +   7543664 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TT-AACAGAGAGGTACTACAACTATGGAAAGAG-TTTTTTTTTAACTGTTGCAATCTATGAAATGGCATCTCTTTATGCTTTCTCGAGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5291865 120 -  13750039 TATGATTTTTATAGTGAATATAGGCTCTGAAA-TTAAACAGAGAGGTACTACAACTATGGAAAGAG--TTTTTTTTAACTGTTGCAATCTATGAAATGGCATCTCTCTACGCTTTCTCGAGTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546400 119 +  50472720 TATAATTTCTATAGTGGATATAGGCTCAGAAA-TTAAACAGAGAGTTACTACTACAATAGAAAGAG---TTTCTTTGACTATTGCAATCTATGATATGGTATCTCTCTATACTTTCTCAAATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724700 116 +  13128814 TATAATTTTTACAGTGAATATAGGCTCAGAAA-TTAAACAGAGAGTTACTGCTACTATGGAAAGAG---TTTCTTTGACTCTTGCAATCTATTAAATGGTATCTCTCTATA---TCTCAAATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970065 114 -  14377064 TATAATTTTTATAGTGAATATAGGCTCAGAAA-TTAAAC--AGAGTTACTACTACAATGGAAAGAG---TTTCTTTGACTGTTGCAATCTATGAAATGGTATCTCTCTATACTTTCTCAA---
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9192941 119 -   9889416 TATAATCTTTATAGTGAATATAGGTTCAGAAA-TTAAACAGAGAGTTACTACTACAATGGCAAGAG---TTTCTTTGACTGTTGCAATCTATGAAATGGTATCTCTCTATACTTTCTCAAATA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23742346 118 +  47401472 TGTGACTTTCATAATGAGTATAAGCTTCCAAATTTAAACAGAGAGATACCATAAATATGGGCAGAA-----TTTCAATCTGTTTCAATCTATGAAATGGTATTTCTTTATGCTTCCTCAAATA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24910201 116 -  38779656 TATGATTTTCATAATGAGTGTAATCTTAGAAA-TTAAACAGAGAGATATCATAACTAT-GGCAGAG-----TTTTTATCTGTTTCAATCTGTGAACTGGTATCTCTTTAGGCTTCCTCAAATA
i otoGar3.GL873528          I 949 I 520
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1999657.000000
s hg38.chr21_GL383579v2_alt    159887 169 +    201197 GCCCAATACTTGAGTATTATTCATAGGGATAAGTCTTTCCTAAAATTCTCATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGACAAAACTCTATAAGGTTAAGTGTTTTACAATA
s panTro5.chr21               8772061 169 +  33445071 GCCCAATACTTGAGTATTATTCATAGAAATAAGTCTTTCCTAAAATTCTCATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGACAAAACTCTGTAAGGTTAAGTGTTTTACAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311163 169 +  46275980 GCCCAATACTTGAGTATTATTCATAGAAATAAGTCTTTCCTAAAATTCTCATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGACAAAACTCTGTAAGGTTAAGTGTTTTACAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294106 168 -  13858734 GCCCAATACTTGAGTATTATTCATAGGAATAAGTCTTTCCTAAAA-TCTCATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGACAAAACTCTGTAAGGTTAAGTGTTTTACAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318067 169 +  32716333 GCCCAATACTTGAGTATTATTCATAGGAATAAGTCTTTCCTAAAATTCTCATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGACAAAACTCTATAAGGTTAAGTGTTTTACAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732116 169 - 185818997 GCCCAATACTTGAGTATTATTCATAGGAATAAATCTTTCCTAAAATTCTTATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTGAAAATCTTCT-ACTCCATGGATGGGAACAATAAATCAGAAGACAAAGCTCTATAAGGTTAAATGTTTTACAATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366778 169 - 192294377 GCCCAATACTTGAGTATTATTCATAGGAATAAATCTTTCCTAAAATTCTTATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTGAAAATCTTCT-ACTCCATGGATGGGAACAATAAATCAGAAGACAAAGCTCTATAAGGTTAAGTGTTTTACAATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002816 169 -  30496662 GCCCAATACTTGAGTATTATTCATAGGAATAAATCTTTCCTAAAATTCTTATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTGCTTGAAAATCTTCT-ACTCCATGGATGGGAACAATAAATCAGAAGACAAAGCTCTATAAGGTTAAGTGTTTTACAATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515408 169 +  21915920 GCCCAATACTTGAGTATTATTCATAGGAATAAATCTTTCCTAAAATTCTTATAACAATTTAAAGGAAAACTTGAAAATTATTTAAATATCTGCTTAAAAATCTTCT-ACTCCGTGGATGGGAGCAATAAATCAGAAGACAAAGCTCTATAAGGTTAAGTGTTTTACAATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016445 169 -  90373283 GCCCAATACTTGAGTATTATTCATAGGAATAAATCTTTCCTAAAATTCTCATAACAATTTAAAGGAAAACTTGAAAATTCTTTAAATATCTACTTAAAAATCTTCT-ACTCCATGGATGGGAACAATAAATCAGAAGACAAAGCTCTATAAGGTTAAGTGTTTTACAATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3534853 169 +   7543664 GCCCAATACTTGAGTATTATTCATAGGAATAAATCTTTCCTAAAATTCTTATAACAATTTAAAGGAAAACTTGAAAATTATTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAACAATAAATCAGAAGACAAAGCTCTATAAGGTTAAGTGTTTTACAATA
i manLeu1.NW_012103476v1    C 0 M 1075
s colAng1.NW_012120598v1      5291985 169 -  13750039 ACCCAATACTTGAGTATTATTCATAGGAATAAATCTCTCCTAAAATTCTCATAACAATTTAAAGGAAAACTTGAACATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGACAAAGCTCTATAAGGTTAAGCGTTTTACAATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546519 168 +  50472720 GCCCAATATTTGAGTATTACTCATAGGAATACATCTATCCTAAAATTCTCATAACAACTTAAAGGGAAACTTGAAAATTCTTTAAATGTCTGCTTAAAAATCTCCT-ATTCCAT-GATGGGAACAATAAATCAGAAGATAAAAGTCTATAAGGTTAAGTGTTTTACAATA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724816 169 +  13128814 GCCCAATATTTGAGTATTACTCATAGGAATAAATCTATCCTAAAATTCTCATAACAATTTAAAGGGAAACTTGAAAATTCTTTAAATATCTGCTTAAAAGTCTTCT-ACTCCATGGATGGGAGCAATGAATCAGAAGATAAAAGTCGATAAGGTTAAGTGTTTTACAATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970179 168 -  14377064 -CCCAATATTTGAGTATTACTCCTAGGAATAAATCTATCCTAAAATTTTCATAACAATTTAAAGGGAAACTTGAAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCATGGATGGGAGCAATAAATCAGAAGATAAAAGCCTATAAGTTTAAGTGTTTTACAATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193060 168 -   9889416 GCCCAATATTTGAGTATTACTCATAGAAATAAATCTATCCTAAAATTCTCTTAACCATTTAAAGGAAAACTTGTAAATTCTTTAAATATCTGCTTAAAAATCTTCT-ACTCCAT-GATGGGAGCAATAAATCAGAAGATAAAAATCTATAAGGTTAAGTGTTTTACAATA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23742464 167 +  47401472 GTCT--GATTTGAGTATAATTCATAAGAATTATTCTTCCCTAGTATT-TCATAACAACTTAAAGGACAGCTTAAAAGTCCTTTACTTATCTACTGAAAAATCTTTTAACTTCTTGAATGGAAGCAATGAATCAGAGGACAAAACTCTGTGAAGTTAAGTGCTTTACAATA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24910837 167 -  38779656 GTCTAAGACTTGAGTATAA-TCATAAGAATAATTCTTTCCTAACATT-TCATAGAACTTTAAAGGAAAGATTGAAAGTCCTTTACCTATCTGCTT-AAAATCTTTTAAGCCTACGAAAGGGAGAAATAAATCAGAGGACAAAACTCTGGTAGGTTAAATGCTTCACAGTA
i otoGar3.GL873528          I 520 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1784082.000000
s hg38.chr21_GL383579v2_alt    160056 181 +    201197 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTAAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAATTTAAATGAATAAAATAATAGCCTATCTGGAAAATTGAGATAGTTACATTCCTTT
s panTro5.chr21               8772230 181 +  33445071 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTAAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAATTTAAATGAATAAAATAATAGCCTATCTGGAAAATTGAGATAGTTACATTCCTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311332 181 +  46275980 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTAAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAATTTAAATGAATAAAATAATAGCCTATCTGGAAAATTGAGATAGTTACATTCCTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294274 179 -  13858734 A--C-TCTTATTCAAACTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTAAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAATTTAAATGAATAAAATAATAGCCTATCTGGAAAATTGAGATAGTTACATTCCTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318236 181 +  32716333 ACTC-TCTTACTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTAAAAATAAATT-ACTTCTCAATTAAGAGGGTGATGAACTTAAATGGATAAAATAATAGCCTATCTGGAACATTGAGATAGTTACATTCCTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732285 181 - 185818997 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCGTTTCTAAAGGATAAGATAAAATTAT--AGTGTTAATTCAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAACTTAAATGAACAAAATGATAACCTATCTGGAACATTGAGATAGTTACATTCCTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167366947 181 - 192294377 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCGTTTCTAAAGGATAAGATAAAATTAT--AGTGTTAATTCAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAACTTAAATGAACAAAATGATAGCCTATCTGGAACATTGAGATAGTTACATTCCTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5002985 181 -  30496662 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCGTTTCTAAAGCGTAAGATAAAATTAT--AGTGTTAATTCAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAACTTAAATGAACAAAATGATAGCCTATCTGGAACATTGAGATAGTTACATTCCTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515577 181 +  21915920 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATAAGATAAAATTAT--GGTGTTAATTCCAAATAAATT-ACTTCTACATTAAGAGAGTGGTGAACTTGAATGAACAAAATGATAGCCTATCTGGAACATTGAGATAGTTACATTCCTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016614 181 -  90373283 ACTC-TCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATAAGATAAAATTAT--AGTGTTAATTCAAAATAAATT-ACTTCTACATTAAGAGGGTGATGAACTTAAATGAACAAAATGATAGCCTATCTGGAACATTGAGATAGTTACATTCCTTT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292154 182 -  13750039 ACTCTTCTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAAGC--TCTTTTCTAAAGGATAAGATAAAATTAT--AGTGTTAATTCAAAATAAATT-ACTTCTATATTAAGAGGGTGATGAACTTAAATGAACAAAATGCTAGCCTATCTGGAACATTGAGATAGTTACATTCCTCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546687 183 +  50472720 ATTC-ACTTATTCAAATTTATTCCAGAAATATACATTTCTTCACCAGCAAATATATTCTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTCAAAACAAATT-GCTTTTATATTAAGAGGGTGATTAACTTAACTGAATGAAATAATACTGTAACTGGAATATTGAGATAGTTACGTGCCTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8724985 183 +  13128814 ACTC-ACTTATTCAAATTTATTCCAGAAGTATATATTTCTTCACCAGAAAATATTTTTTTTCTAAAGGATTAGATAAAATTAT--AGTGTTAATTCAAAATAAATT-ACTTTTACATTAAGAGGGTGATTAACTTAAATGAATAAAATAATACCATATCTGGAACATTGAGATAGTCACATTTCTTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970347 182 -  14377064 ACGC-ATTTATTTAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAATAT-TTTTTTCTAAAGGATTAGATAAAATTAT--ATTGTTAATTCAAAATAAATT-ACTTTTATATTAAGAGGGTGATTAACTTAAATGAGTAAAATAATACCATATCTGGAACATTGAGGTAGTTACATTCCTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193228 182 -   9889416 ACTG-ATTTATTCAAATTTATTCCAGAAGTATACATTTCTTCACCAGCAAATAT-TTTTTTCCAAAGGATTAGATAAAATTAT--AGTGTTAATTCAAAATAAACT-ACTTTTATATTAAGTGGGTGATTAACTTAAATGAATAAAATAATACCGTATCTGGAACATTGAGATAGTTACATTCCTTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23742631 180 +  47401472 ACTC-TCTTATGCAAGTCTATTCTGAAAGTATATATTTCTTTATCAGCA-GGA--TTTTTTCTAAAGGATTAGATAA---TATACAGTGTTAATTTAAAATGAATTCGCTTCTACATTATGTGGATGATGGAATGAAATAAATAAAATAATATCTTACCTGTAACACTGAGATAGCCACATTCCTTT
i micMur3.chr31             C 0 I 172
s otoGar3.GL873528           24911004 184 -  38779656 ATTC-TTTTATGAAAGTCAATACTGAAAAAATACATTTCTTTACCAGCATGGT--TTCTTTCTAAAGGACTAGACGAAATTAGACAGAGTTATTTCAAACTGAATTTGTTCTTACGTTAAGTAGGTGATGAAGTGAAGTAAATGAAACAATATCCTACCTAGAACACTAAGATAGTTACAGGCCTTT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=10920.000000
s hg38.chr21_GL383579v2_alt    160237 1 +    201197 T
s panTro5.chr21               8772411 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311513 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294453 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318417 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732466 1 - 185818997 T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367128 1 - 192294377 T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003166 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515758 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016795 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292336 1 -  13750039 T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546870 1 +  50472720 T
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8725168 1 +  13128814 T
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970529 1 -  14377064 T
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193410 1 -   9889416 T
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24911188 1 -  38779656 t
i otoGar3.GL873528          C 0 I 490
e micMur3.chr31              23742811 172 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=25795.000000
s hg38.chr21_GL383579v2_alt    160238 3 +    201197 TTA
s panTro5.chr21               8772412 3 +  33445071 TTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311514 3 +  46275980 TTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294454 3 -  13858734 TTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318418 3 +  32716333 TTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732467 3 - 185818997 TTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367129 3 - 192294377 TTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003167 3 -  30496662 TTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515759 3 +  21915920 TTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016796 3 -  90373283 TTA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292337 3 -  13750039 TTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546871 3 +  50472720 TTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8725169 3 +  13128814 TGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970530 3 -  14377064 TTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193411 3 -   9889416 TTA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23742811 172 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24911189 490 -  38779656 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=945550.000000
s hg38.chr21_GL383579v2_alt    160241 120 +    201197 TTCTTTCTCACGACTAGGGCAACTTTCCAAAAGGG-GCATGCTTTGGACTTGGGGGCAACTGAGAAGTATACATACAGATAATAAATGAA------AAATAAAGCACAAAAGTTAGCTTT----TTCAT---------GG
s panTro5.chr21               8772415 120 +  33445071 TTCTTTCTCACGGCTAGGGCAACTTTCCAAAAGGG-GCATGCTTTGGACTTGGGGGCAACTGAGAAGTGTACATACAGATAATAAATGAA------AAATAAAGCACAAAAGTTAGCTTT----TTCAT---------GG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311517 120 +  46275980 TTCTTTCTCACGGCTAGGGCAACTTTCCAAAAGGG-GCATGCTTTGGACTTGGGGGCAACTGAGAAGTGTACATACAGATAGTAAATGAA------AAATAAAGCACAAAAGTTAGCTTT----TTCAT---------GG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294457 120 -  13858734 TTCTTTCTCACAGCTAGGGCAACTTTCCAAAAGGG-GCATGCTTTGGACTTGGGGGCAACTGAGAAGTATACATACAGATAATAAATGAA------AAATAAAGCACAAAAGTTAACTTT----TTCAT---------GG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318421 124 +  32716333 TTCTTTCTCACAACCAGGGCAACTTTCCAAAAGGG-GCATGCTTTGGACTTGGGGGCAACTGAGAAGTATACATACAGATAATAAATGAAAAAG--AAACAAAGCACACAAGTTAGCTAT----TTCAT---------GG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732470 124 - 185818997 TTCTTTCTCATGGCCAGGGCAACTCTCCAAAAGGGGGCATGCTTTGGACTTGTGAGCAACTGAGAAGTATACATACAGATAATAAATAAA-AAG--AAACAAAGCACAAAAGTTAGTTAT----TTCAT---------GG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367132 124 - 192294377 TTCTTTCTCATGGCCAGGGCAACTCTCCAAAAGGGGGCATGCTTTGGACTTGTGAGCAACTGAGAAGTATACATACAGATAATAAATAAA-AAG--AAACAAAGCACAAAAGTTAGTTAT----TTCAT---------GG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003170 124 -  30496662 TTCTTTCTCATGGCCAGGGCAACTCTCCAAAAGGGGGCATGCTTTGGACTTGTGAGCAACTGAGAAGTATACATACAGATAATAAATAAA-AAG--AAACAAAGCACAAAAGTTAGTTAT----TTCAT---------GG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515762 124 +  21915920 TTCTTTCTCATGGCCAGGGCAACTCTCCAAAAGGGGACATGCTTTGGACTTGTGAGCAACTGAGAAGTCTACATACAGATAATAAATAAA-AAG--AAACAAAGCACAAAAGTTAGTTAT----TTCAT---------GG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016799 124 -  90373283 TTCTTTCTCATGGCCAGGGCAACTCTCCAAAAGGGGGCATGCTTTGGACTTGTGAGCAACTGAGAAGTATACATACAGATAATAAATAAA-AAG--AAACAAAGCACAAAAGTTAGTTAT----TTCAT---------GG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292340 124 -  13750039 CTCTTTCTCATGGCCAGGGCAACTTTCCAAAAGGGAGCATGCTTTGGACTTGTGAGCAACTGAGAAGTATACGTACAGATAATAAATAAA-AAG--AAACAAAGCACAAAAGTTAGTTAT----TTCAT---------GG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26546874 135 +  50472720 TTCTTTCTCATGGCTAGATCGACTTTCCAGAAA---GCATGCTTTGGACTTGCAAGCAACTGAAAAGTACACATACAGATAACAAATGAA-AAG-AAAGCAAAGTATAAACTTCAGCTTTATGCTTTATATCATGTTAGG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8725172 135 +  13128814 TTCTTTCTCATGGCCAGATGAACTTTCCAGAAG---GCATGCTTTGGACTTGCAAGCAACTGAAAAGTACACATACAGATAACAAATGAA-AAG-AAAACAAAGCATAAACTTTAGTTTTATGCTTCATATCATGTTAGG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970533 135 -  14377064 TTCTTTCTCATGGCCAGATCAACTTTCCAGAAG---GCATGCTTTGGACTTGCAAGCAACTgaaaagtacacatacagacaacaaatgaa-aag-aaaacaaaGCATAAACTTCAGCTTTATGCTTTATATCACGTTAGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193414 135 -   9889416 TTTTTTCTCATAGCCAGATCAACTTTCCAGAAG---GCATGCTTTGGACTTGCAAGCAACTGAAAAGTACACATACAGATAACAAATTAA-AAG-AAAACAAAGCATAAACTTTAGCTTTATGCTTTATATCATGTTAGG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24911679 115 -  38779656 TTATTTTTCATGGCTAAGATAGCTTTCTGGAAAGG-GTGTGGTTCACATTTGTGAGCAA----------TGCATACAAATAAGTAATGAA-AAAGAAATCAAAGCACAAAAGTTAGCTAT----TTTGC---------GG
i otoGar3.GL873528          I 490 I 432
e micMur3.chr31              23742811 172 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=121058.000000
s hg38.chr21_GL383579v2_alt    160361 14 +    201197 AGGATATGCTGTAA
s panTro5.chr21               8772535 14 +  33445071 AGGATATGCTATAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311637 14 +  46275980 AGGATATGCTATAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294577 14 -  13858734 AGGATATGCTATAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318545 14 +  32716333 AGGACATGATATAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732594 14 - 185818997 AGGACATGATATAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367256 14 - 192294377 AGGACATGATATAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003294 14 -  30496662 AGGACATGATATAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515886 14 +  21915920 AGGACATGATATAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016923 14 -  90373283 AGGACATGATATAA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292464 14 -  13750039 AGGACATGATATAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26547009 14 +  50472720 AGGACATGATATAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8725307 14 +  13128814 AGGACATGATATAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970668 14 -  14377064 AGGACATGATATAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193549 14 -   9889416 AGGACATGATATAA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23742811 172 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24911794 432 -  38779656 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=317555.000000
s hg38.chr21_GL383579v2_alt    160375 35 +    201197 CTCTGCTGTCAGTCATTTTAAAAATTG-TAACAACT
s panTro5.chr21               8772549 35 +  33445071 CTCTGCTGTCAGTCATTTTAAAAATTG-TAACAACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311651 35 +  46275980 CTCTGCTGTCAGTCATTTTAAAAATTG-TAACAACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294591 35 -  13858734 CTCTGCTGTCAGTCATTTTAAAAATTG-TAACAACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318559 35 +  32716333 CTCTGCTATCAGTCATTTTAAAAATTG-TAACAACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732608 35 - 185818997 CTCTGCTGTCAGTCATTTTAAATATTG-TAACAACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367270 35 - 192294377 CTCTGCTGTCAGTCATTTTAAATATTG-TAACAACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003308 35 -  30496662 CTCTGCTGTCAGTCATTTTAAATATTG-TAACAACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515900 35 +  21915920 CTCTGCTGTCAGTCATTTTAAATATTG-TAACAACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016937 36 -  90373283 CTCTGCTGTCAGTCGTTTTAAATATTGTTAACAACT
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292478 35 -  13750039 CTCTGCTGTCAATCATTTTAAATATTC-TAACAACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26547023 35 +  50472720 CTCTCCTGTCAATCATTTTAAAAATTG-TAACAACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8725321 35 +  13128814 CTCTCCTGTCAATCATTTTACAAATTG-TAACAACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970682 35 -  14377064 CTCTCCTGTCAATCATTTTAAAAATTG-TAACAACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193563 33 -   9889416 CTCTC--ATCAATCATTTTAAAAATTG-TAACAACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24912226 34 -  38779656 CTCTTCTGTCAGACATCTTAAAAATT--TCACAACT
i otoGar3.GL873528          I 432 C 0
e micMur3.chr31              23742811 172 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=1853806.000000
s hg38.chr21_GL383579v2_alt    160410 186 +    201197 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCATACC-TTACATAGGGAACATAGTCATATTCACAGTTAATTTTAATAGTTTCAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTAGTGTTCTTA
s panTro5.chr21               8772584 186 +  33445071 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCATACC-TTACATAGGGAACATAGTCATATTCACAGTTAATTTTAATAGTTTCAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTAGTGTTCTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311686 186 +  46275980 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCATACC-TTACATAGGGAACATAGTCATATTCACAGTTAATTTTAATAGTTTCAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTAGTGTTCTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294626 186 -  13858734 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCATACC-TTACATAGGGAACATAGTCATATTCACAGTTAATTTTAATAGTTTCAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTAGTGTTCTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318594 186 +  32716333 GGAAGAGATGGCAACTGATCAAA-TTTCCAAAAGCTTATACA-TTACATAGGGAACACAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTAGTGTTCTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732643 186 - 185818997 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTTTTAAA-TTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTGGCATTCTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367305 186 - 192294377 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTTTTAAA-TTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTGGCATTCTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003343 186 -  30496662 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTTTTAAA-TTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTGGCATTCTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13515935 186 +  21915920 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTTTTAAA-TTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTGGCATTCTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20016973 186 -  90373283 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCTTAAA-TTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCGCAGATATAACACTATAATCCATTAACATAAATTGCCTGT-AAAAGGAGCTGGCATTCTTA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292513 186 -  13750039 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCTTAAA-TTACATAGGCAACATAGTCATATTCACAGTTAATTTTAACAGTCTGAGCATCTTTGACAGCAGTGGAA-TGCTATCCACTTAGTTCACAGATATAACACCATAATCCATTAAAATAAATTGTCTGT-AAAAGGAGCTGGCATTCTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26547058 176 +  50472720 GGAAGAGATGTCA-CCGATCAAATTTTCTGAGATCTCTTAAATTTACCCAGGGAACAT------------AGTTAATTTTAATAGTTTGAGCATCTTTGACAGCCGTGGGACCACTATCCACTTA-TCTCTTGAAATAATACCATAATCCATTACAATAATTCGCCCGTAAAAAGGAGCTGGCCTCCTTA
i calJac3.chr21             C 0 I 290
s saiBol1.JH378168            8725356 182 +  13128814 GGAATAGATGTCAGCTGATCAAA-TTTCTGAGGTCTCTTAAA-TTACATAGGGAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACAGCAGTGGAA-TACTATCCACTTAGTTCCTGGAAATAATACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTGGCATC----
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970717 183 -  14377064 GGAAGAGATGTCAACTGATCAAA-TTTCTGAGATCTCTTAAA-TTACATAGGGAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGACGGCAGTGGAA-TACTATCCACTTAGTTCTTGGAAATAATACCATAATCCATTAAAATAAATTGCCTGT-AAAAGGAGCTGGCATTC---
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193596 170 -   9889416 GGAAGAGCTGTCAACTGATCAAA-TTTCTGAGATCTCTTAAA-TTACATAGGGAACAT------------AGTTAATTTTAATAGTTTGAGCATGTTTGACAGCAGTGGAA-TTCCATCCACTTAGTTCTTGGAAATAATACCATAATCCATGAAAATAAATTGCCTGT-AAAAGGAGCTGGCATC----
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23742983 185 +  47401472 GGAAGAGATGTCAACTGATCAAA-TTTCCAAGAGCTCTTAAA-TTACATGAGCAACATAGTAATATGCACAGCTATTTTTAATAGTTTGAGCATCATTGACATCAGTGGAA-CGCTATTCATTTAGTTATTAGATGTAACACCATAATGTGTT-AAATAAATTGCCTGT-CAAAGAAGCTGGCATTCTTA
i micMur3.chr31             I 172 C 0
s otoGar3.GL873528           24912260 186 -  38779656 GGAAGAGATGTCAACTCTTCAAA-TTTTTAAGAGCTCTTAAA-TTACATGAGCAATGTAGTAATATCCACAGTTATTTTTAATGGTTTGAGAATCTTTAATAGCAGTGGGA-TGCTATTCACCTAGTCATTAGATACAATAACACAATGTGTTGGAATAAATTGCTTGT-AACAGAAGTGGGCATTCTTA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=12743.000000
s hg38.chr21_GL383579v2_alt    160596 3 +    201197 AAG
s panTro5.chr21               8772770 3 +  33445071 AAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311872 3 +  46275980 AAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294812 3 -  13858734 AAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318780 3 +  32716333 AAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732829 3 - 185818997 AAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367491 3 - 192294377 AAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003529 3 -  30496662 AAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516121 3 +  21915920 AAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017159 3 -  90373283 AAG
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292699 3 -  13750039 AAG
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23743168 3 +  47401472 AAG
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24912446 1 -  38779656 A--
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13970900 0 -  14377064 C
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9193766 0 -   9889416 C
e calJac3.chr21              26547234 290 +  50472720 I
e saiBol1.JH378168            8725538 0 +  13128814 C
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=361822.000000
s hg38.chr21_GL383579v2_alt    160599 34 +    201197 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGA
s panTro5.chr21               8772773 34 +  33445071 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311875 34 +  46275980 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294815 34 -  13858734 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318783 34 +  32716333 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732832 34 - 185818997 TTATGTAAGTGTTGAGAAGTAAGAAGGAAGAGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367494 34 - 192294377 TTATGTAAGTGTTGAGAAGTAAGAAGGAAGAGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003532 34 -  30496662 TTATGTAAGTGTTGAGAAGTAAGAAGGAAGAGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516124 34 +  21915920 TTATGTAAGTGTTGAGAAGTAAGAAGGAAGAGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017162 34 -  90373283 TTATGTAAGTGTTGAGAAGTAAGAAGGAAGAGGA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292702 34 -  13750039 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAACGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26547524 33 +  50472720 TTATGTAAGTG-TGAGAAGGAAGAAGGAAAAGGA
i calJac3.chr21             I 290 C 0
s saiBol1.JH378168            8725538 34 +  13128814 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970900 34 -  14377064 TTATGTAAGTGTTGAGAAGGAAGAAGAAAAAGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193766 34 -   9889416 TTATGTAAGTGTTGAGAAGGAAGAAGGAAAAGGG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23743171 34 +  47401472 TTATTTATGTATTCAGAAGGAAGAATGAAAAGGA
i micMur3.chr31             C 0 I 311
s otoGar3.GL873528           24912447 26 -  38779656 --------GTGTTGAGAAGAAAGAATAAAAAGGA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=972632.000000
s hg38.chr21_GL383579v2_alt    160633 120 +    201197 --GAAAGAAATTGTTGC-AAAAAAT-GTACC------TTATTCATTTCTT----TATTGAGATCCTCTTTTGCAAAATATAAATAGATAAAAG-AAAAAATAAAAATTTTCCTGTTCACAGAATAAAATAATGCA
s panTro5.chr21               8772807 118 +  33445071 --GAAAGAAATTGTTGC-AAAAAAT-GTACC------TTATTCATTTCTT----TATTGAGATCCTCTT--GCAAAATATAAATAGATAAAAG-AAAAAATAAAAATTTTCCTGTTCACAGAATAAAATAATGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22311909 118 +  46275980 --GAAAGAAATTGTTGC-AAAAAAT-GTACC------TTATTCATTTCTT----TATTGAGATCCTCTT--GCAAAATATAAATAGATAAAAG-AAAAAATAAAAATTTTCCTGTTCACAGAATAAAATAATGCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294849 120 -  13858734 --GAAAGAAATTGTTGC-AAAAAAT-GTACC------TTATTCATTTCTT----TATTGAGATCCTCTTTTGCaaaatataaatagataaaag-aaaaaataaaaatTTTCCTGTTCACAGAATAAAATAATGCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318817 120 +  32716333 --GAAAGAAATTGTTGC-AAAAAAA-GTACC------TTATTCATTTCTT----TATTGAGATCCTCTTTTGCAAAACATAAATAGATAAAAG-AAAAAATAAAAATTTTCCTGTTCACAGAATAAAATAATGCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732866 125 - 185818997 --GAAAGAAATTGTTGC-AAAAAAA-GTACC------TTATTCATTTCTTTAACTATTCAGATCCTCTATTGCAAAACATAAATAGATAAAAGAAAAAAATAAGAATTTTCCTATTCACAGAATAAAATAATGCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367528 125 - 192294377 --GAAAGAAATTGTTGC-AAACAAA-GTACC------TTATTCATTTCTTTAACTATTCAGATCCTCTATTGCAAAACATAAATAGATAAAAGAAAAAAATAAGAATTTTCCTATTCACAGAATAAAATAATGCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003566 125 -  30496662 --GAAAGAAATTGTTGC-AAAAAAA-GTACC------TTATTCATTTCTTTAACTATTCAGATCCTCTATTGCAAAACATAAATAGATAAAAGAAAAAAATAAGAATTTTCCTATTCACAGAATAAAATAATGCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516158 125 +  21915920 --GAAAGAAGTTGTTGC-AAAAAAA-GTACC------TTATTCATTTCTTTAACTATTCAGATCCTCTATTGCAAAACATAAATAGATAAAAGAAAAAAATAAGAATTTTCCTATTCACAGAATAAAATAATGCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017196 125 -  90373283 --GAAAGAAATTGTTGC-AAAAAAA-GTACC------TTATTCATTTCTTTAACTATTCAGATCCTCTATTGCAAAACATAAATAGATAAAAGAAAAAAATAAGAATTTTCCTATTCACAGAATAAAATAATGCA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292736 126 -  13750039 --GAAAGAAATTGTTGC-AAAAAAATGTACC------TTATTCATTTCTTTAATTATTCAGATCCTCTATTGCAAAACATAAATAGATAAAAGAAAAAAATAAGAATTTTCCTATTCACAGAATAAAATAATGCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26547557 122 +  50472720 --GAAAGAAGTTGTTAC---AAAAA-ATGCC------TTATTCGTTTCTTTAACTATTGAGATCCTCTGCTTCAAAACATAAGTGGATAAAAG-CAAATATAAGAATTTTTCTATTCACATAATCAACTAATGTA
i calJac3.chr21             C 0 I 619
s saiBol1.JH378168            8725572 124 +  13128814 --GAAAAAAGTTGTTACAAAAAAAA-ATGCT------TTATTCATTTCTTTGACTATTGAGATCCTCTACTTC-AAACATAAATAGATAAAAG-AAAAAATAAGAATTTTTCTATTCACAGAATAAACTAATGCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13970934 118 -  14377064 --GAAAGAAGTCATTAT--AAAAAA-ATGCC------TTATTAATTTCTTTAACTATTGAGGTCCTCTACTTCAAGTCATAAACAGATAAAAG-AAAAAATAAGAATTTTTCTATTCACAGAA-----TAATGCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193800 124 -   9889416 --GAAAGAAGTTGTTAC-AAAAAAT-ATTCC------TTATTCACTTATGTAGCTATTGAGATCCTCTACTTCAAAACATAAATGGATAAAAG-AAAAAATAAGAATTTTTCTATTCACAGAATAAACTAATGTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24912473 129 -  38779656 TAAACAACAACTATTAC-CAAAAAA-CGATCATCCTTTTATTCACTTCTTATACTAATGAGATCCTTAACTGCAAAAC-TAAA-AGATAAAG--ACAAAATGAGAATTTTCTTATTCATAGAATAAAATAATTTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23743205 311 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=1517895.000000
s hg38.chr21_GL383579v2_alt    160753 180 +    201197 CAGAATTATCTTACATCTGTACTATGAAGTGGGCCATTAGAGACCTTCTAAAGTCTAATACAAGTAATGCAAAAGCACAAAAGGAGATTAACTTTGCAACTTGACAAATAGATGCAA------GAATAAG-AAAAAAATACTTAGGACAATTAA----CACAAAATACACATCATTACAGACATTTAGTCA
s panTro5.chr21               8772925 180 +  33445071 CAGAATTATCTTACATCTGTACTATGAAGTGGGCCATTAGAGACCTTCTAAAGTCTAATACAAGTAATGCAAAAGCACAAAAGGAGATTAACTTTGCAACTTGACAAATAGATGCAA------GAATAAG-AAAAAAATACTTAGGACAATTAA----CACAAAATACACATCATTACAGACATTTAGTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312027 179 +  46275980 CAGAATTATCTTACATCTGTACTATGAAGTGGGCCATTAGAGACCTTCTAAAGTCTAATACGAGTAATGCAAAAGCACAAAAGGAGATTAACTTTGCAACTTGACAAATAGATGCAA------GAATAAG--AAAAAATACTTAGGACAATTAA----CACAAAATACACATCATTACAGACATTTAGTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8294969 181 -  13858734 CAGAATTATCTTACATCTGTACTATGAAGTGGGCCATTAGAGACCTTCTAAAGTCTAATACAAGTAATGCAAAAGCACAAAAGGAGATTAACTTTGCAACTTGACAAATAGATGCAA------GAATAAGAAAAAAAATACTTAGGACAATTAA----CACAAAATACACATCATTACAGACATTTAGTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9318937 181 +  32716333 CAGAATTATCTTACATCTGTACTATGAAGTGGGCCATTAGAGACCTTCTAAAGTCGAATACAAATAATGCAAAAGCACAAAAGGAGATTAACTTTGCAACTTGACAAATAGACGCAA------GAATAAGAAAAAAAATACTTAGGACAATTAA----CACAAAATATACATCATTACAGACATTTAGTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160732991 180 - 185818997 CAGAATTATCTTACATCTGTACTATCAAGTGGGTCATTAGAGACCTTCTAAAGTCTAATAAAAATGATGCAAAAGCCCAAGAGGAGATTATCGTTGCAGCATGACAAATAGATGCAA------CAATAAG-AAAAAAATACTTAGGACAATCAA----CAAAAAATATACATCATTACAGATATTTAGTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367653 180 - 192294377 CAGAATTATCTTACATCTGTACTATCAAGTGGGTCATTAGAGACCTTCTAAAGTCTAATAAAAATGATGCAAAAGCCCAAGAGGAGATTATCGTTGCAGCATGACAAATAGATGCAA------CAATAAG-AAAAAAATACTTAGGACAATCAA----CAAAAAATATACATCATTACAGATATTTAGTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003691 180 -  30496662 CAGAATTATCTTACATCTGTACTATCAAGTGGGTCATTAGAGACCTTCTAAAGTCTAATAAAAATGATGCAAAAGCCCAAGAGGAGATTATTGTTGCAGCATGACAAATAGATGCAA------CAATAAG-AAAAAAATACTTAGGACAATCAA----CAAAAAATATACATCATTACAGATATTTAGTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516283 180 +  21915920 CAGAATTATCTTACATCTGTACTATCAAGTGGGTCATTAGAGACCTTCTAAAGTCTAATAAAAATGATGCAAAAGCCCAAGAGGAGATTATCGTTGCAGCATGACAAATAGATGCAA------CAATAAG-AAAAAAATACTTAGGACAATCAA----CAAAAAATATACATCATTACAGATGTTTAGTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017321 180 -  90373283 CAGAATTATCTTACATCTGTACTATCAAGTGGGTCATTAGAGACTTTCTAAAGTCTAATAAAAATGATGCAAAAGCCCAAGAGGAGATTATCGTTGCAACATGACAAATAGATGCAA------CAATAAG-AAAAAAATACTTAGGACAATCAA----CAAAAAATATACATCATTACAGATATTTAGTCA
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5292862 180 -  13750039 CAGAATTATCTTACATCTGTACTATGAAGTGGGTCATTAGAGACCTTCCAAAGTCTAATAAAAATGATGCAAAAGCCCAAGAGAAGATTATCTATGCAACATGACAAATAGATGCAA------GAATAAG-AGAAAAATACTTAGGATAATCAA----CACAAAATATACATCATTACAGACATTTAGTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548298 179 +  50472720 cagaATTCTCTTACATCCGTACTATGAAATGGGACATTAGAGACCTTCTAATGTCTAATGAAAACAACACAAAAGCGCAAGAGGAGATTATCTTTGCAACTTCACAAATCCATGCAA------GAATAAG-AAAA-AATACTTAGGACACTTAA----CACAAAGCATACATCATTACAGACATTTAGTCT
i calJac3.chr21             I 619 C 0
s saiBol1.JH378168            8725696 167 +  13128814 CAGAATTCTCTTACATCTCTATTGTGAAGTGGGCCATTAGAGACCTTCTAATGTCTAATGAAAATAATACAAAAGC-------------ATCTTTGCAACTTAACAAATCCATGCAA------GAATAAG-AAAACAATACTTAGGACACTTAA----CACAAAGTATACATCGTTACAGACATTTAGTCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971052 179 -  14377064 CAGAATTCTCTTACATCTCTATTGTGAAGTGGGCCATTAGAGACCTTCTAATGTCTAATGGAAATAATACAAAAGCACAAGAGGAGATTATCTTTGCAACTTAACACATCCATGCAA------GAATAAG-AAAA-AATACTTGGGACACTTAA----CACAAAGTATACATCGTTACAGGCATGTAGTCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9193924 175 -   9889416 CAGAATTCTCTTACATGTCTATTGTGAAGTGGGCCATTAGAGACCTTCTAATGTCTAATAAAAATAATACCAAAGCACAGGAGGAGATTATCTTTGCAACTTAACAAATCCATGCAA------GAATAAG-AAAA-AATACTTGGGACACTTAA----CACAAAGTATACatcatta----catttagtca
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24912602 186 -  38779656 CAGAGTTATCTCACAAATGTACTACAAAGTGGTCCATTGGAGACCTTCCAATTTCTAATG-AAACAGTACAAAAGTACA-GTGGAAAATATACTTGGAACTTGATAAATAGAAGGAATTTAAGGAATAAG-AAA--AATACAAAGGCAAATTAAAGATCACAAAATATACATAATTACATACACTTAGTCA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23743205 311 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=924950.000000
s hg38.chr21_GL383579v2_alt    160933 97 +    201197 atcatcatcatcatcatgaccttcctgcatcttccatcTATATTTTTATATCTACTTGGTTCCCTCATTTTGTTTTTG-TAACTGATACAGTCATTTT
s panTro5.chr21               8773105 97 +  33445071 atcatcatcatcatcatGACCTTCCTGCACCTTCCATCTATATTTTTATATCTACTTGGTTCCCTCATTTTGTTTTTG-TAACTGATACAGTCATTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312206 97 +  46275980 ATCATCATCCTCATCATGACCTTCCTGCACCTTCCATCTATATTTTTATATCTACTTGGTTCCCTCATTTTGTTTTTG-TAACTGATACAGTCATTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295150 97 -  13858734 atcatcatcatcatcatGACCTTCCTGCACCTTCCATCAATATTTTTATATCTACTTGGTTCCCTCATTTTGTTTTTG-TAACTGATACAGTCATTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319118 97 +  32716333 atcatcatcatcatcatGACCTTCCTGCACCTTCCGTCTATATTTTTATGTCTACTTGGTTCCCTCATTTTGTTTTTG-TAACTGATACAGTCATTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733171 91 - 185818997 atcatcatcatcatcatgaccttcatGCACCTTCCATCTATA--TTTATGTCTACTTGGTTCCCTCATTTTGCT-----TAACTGATACAGTCATTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367833 91 - 192294377 atcatcatcatcatcatgaccttcatGCACCTTCCATCTATA--TTTATGTCTACTTGGTTCCCTCATTTTGCT-----TAACTGATACAGTCATTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003871 91 -  30496662 atcatcatcatcatcatgaccttcatGCACCTTCCATCTATA--TTTATGTCTACTTGGTTCCCTCATTTTGCT-----TAACTGATACAGTCATTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516463 91 +  21915920 atcatcatcatcatcatgaccttcatGCACCTTCCATCTATA--TTTATGTCTACTTGATTCCCTCATTTTGCT-----TAACTGATACAGTCATTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017501 91 -  90373283 atcatcatcatcatcatgaccttcatGCACCTTCCATCTACA--TTTATGTCTACTTGGTTCCCTCATTTTGAT-----TAACTGATACAGTCATTTT
i chlSab2.chr2              C 0 I 1
s colAng1.NW_012120598v1      5293042 88 -  13750039 ---ATCATCATCATCATGACCTTCATGCACCTTCCATCTGTA--TTTATGTCTACTTGGTTCCCTCATTTTGAT-----TAACTGATACAGTCATTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548477 98 +  50472720 ATCATTATTATCATCATGACCTTCATGCACCTTTCCTATATATTTTTATGTCTACTTGGTTTCCTCATTTTGATTTTTGTAACTGATATAGTCATTTT
i calJac3.chr21             C 0 I 3
s saiBol1.JH378168            8725863 98 +  13128814 ATCATTATCATCATCATGACCTTCATGCACCTTCCATATATATTTTTATGTCTACTTGGTTTCCTCATTTTGATTTTTGTAACTGATACAGTCATTTT
i saiBol1.JH378168          C 0 I 3
s cebCap1.NW_016107322v1     13971231 96 -  14377064 ATCATTATCATCATCATGACC-TCATGCACCTTCCATATATATTTTTATGTCTACTTGGTTTCCTCATTTTGATTTTT-TAACTGATATAGTCATTTT
i cebCap1.NW_016107322v1    C 0 I 25
s aotNan1.NW_018487195v1      9194099 98 -   9889416 atcattatcatcatcatGACCTTCATGCACCTTCCATATATATTTTTATGTCTACCTGGTTTCCTCATTTTGATTTTTGTAACTGATAGAGTCATTTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23743516 98 +  47401472 atcatcatcatcatcataatcttcatGCACCTTCCATCTATATTTTTATGTCTAGTTGGTTCCATCATTTAAATTTTTGTAACAAATAAAGTCATTTA
i micMur3.chr31             I 311 C 0
s otoGar3.GL873528           24912788 95 -  38779656 ---ATGATCATGATCATGACCTTCATGCACCTTCCATTTATAATTTTGTATCTAGTTGGTTCTATCATTTTAATTTTTGTAATGAACATAGTCATTGA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=66281.000000
s hg38.chr21_GL383579v2_alt    161030 13 +    201197 AAAG------------AAGAAGTTA
s panTro5.chr21               8773202 13 +  33445071 AAAG------------AACAAGTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312303 13 +  46275980 AAAG------------AACAAGTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295247 13 -  13858734 AAAG------------AACAAGTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319215 13 +  32716333 AAAA------------AACAAGTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733262 13 - 185818997 AAAA------------AACAAGTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367924 13 - 192294377 AAAA------------AACAAGTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003962 13 -  30496662 AAAA------------AACAAGTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516554 13 +  21915920 AAAA------------AACAAGTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017593 13 -  90373283 AAAA------------AACAAGTTA
i chlSab2.chr2              I 1 C 0
s colAng1.NW_012120598v1      5293130 13 -  13750039 AAAA------------AACAAGTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548578 12 +  50472720 AAAA------------AGTAATTT-
i calJac3.chr21             I 3 C 0
s saiBol1.JH378168            8725964 12 +  13128814 AAAA------------AGTAGTTT-
i saiBol1.JH378168          I 3 C 0
s aotNan1.NW_018487195v1      9194197 24 -   9889416 AAAAAAAAACTGATATAGTCATTT-
i aotNan1.NW_018487195v1    C 0 I 9
s micMur3.chr31              23743614 12 +  47401472 -AAA------------GACCAATTA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24912883 12 -  38779656 -AAA------------GACAAATTG
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13971327 25 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=302011.000000
s hg38.chr21_GL383579v2_alt    161043 32 +    201197 ATTTATTCAATTGAGTCAGTGTTTGACTGAAC
s panTro5.chr21               8773215 32 +  33445071 ATTTATTCAATTGAGTCAATGTTTGACTGAAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312316 32 +  46275980 ATTTATTCAATTGAGTCAATGTTTGACTGAAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295260 32 -  13858734 ATTTATTCAGTTGAGTCAGTGTTTGACTGAAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319228 28 +  32716333 ATTTATTC----GAGTCAGTGTTTGACTGAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733275 32 - 185818997 ATGTATTCAATTGATTCAGTGTTTGACTGAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367937 32 - 192294377 ATGTATTCAATTGATTCAGTGTTTGACTGAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5003975 32 -  30496662 ATGTATTCAATTGATTCAGTGTTTGACTGAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516567 32 +  21915920 ATGTATTCAATTGATTCAGCGTTTGACTGAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017606 32 -  90373283 ATGTATTCAATTGATTTAGCGTTTGACTGAAC
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5293143 32 -  13750039 ATGTATTCAATTGATTCAGTGTTTGACTGAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548590 32 +  50472720 ATTTATTCAATTGGTTCAGTGTTTGACTAAAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8725976 32 +  13128814 ATTTATTCAATTGATTTAGTGTTTGACTTAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971352 32 -  14377064 ATTTATTCAACTGATTCAGTGTTTGACTGAAC
i cebCap1.NW_016107322v1    I 25 C 0
s aotNan1.NW_018487195v1      9194230 32 -   9889416 AATTATTCAATTGATTCAGTGTTTGACTGAAC
i aotNan1.NW_018487195v1    I 9 C 0
s micMur3.chr31              23743626 32 +  47401472 ATGTATTCAATTGATTCAGTGTTTGATTGAAC
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24912895 20 -  38779656 ATTTATTCAGCTGATTC------------AAT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e manLeu1.NW_012103476v1      3535022 1075 +   7543664 M

a score=1882149.000000
s hg38.chr21_GL383579v2_alt    161075 159 +    201197 TCACTGATTGTTTCAGAAAATGTTCTGTAAATACACACTGCCCAAATGCTGC--TGCTTTGACTTATTGTCTCAGAGACTCCCATACATATTTAAGTGGTCAAAAGAAGCATGTAGTAAATTTTTTATTTCTGACAGTGgcagctgctgctgctg---ttgctg
s panTro5.chr21               8773247 162 +  33445071 TCACTGATTGTTTCAGAAAATGTTCTGTAAATACACACTGCCCAAATGCTGC--TGCTTTGGCTTATTGTCTCAGAGACTCCCATACATATTTAAGTGGTCAAAAGAAGCATGTAGTAAATTTTTTATTTCTGACAGTGgcagctgctgctgctgctgttgctg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312348 162 +  46275980 TCACTGATTGTTTCAGAAAATGTTCTGTAAATACACACTGCCCAAATGCTGC--TGCTTTGGCTTATTGTCTCAGAGACTCCCATACATATTTAAGTGGTCAAAAGAAGCATGTAGTAAATTTTTTATTTCTGACAGTGgcagctgctgctgctgctgttgctg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295292 161 -  13858734 TCACTGATTGTTTCAGAAAATGTTCTGTAAATACACACTGCCC-AATGCTGC--TGCTTTGGCTTATTGTCTCAGAGACTCCCATACATATTTAAGTGGTCAAAAGAAGCATGTAGTAAATTTTTTATTTCTGACAGTGgcagctgctgctgctgctgttgctg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319256 162 +  32716333 TCACTGATTGTTTCAGAAAATATTCTGTAAACACACACTGCCCAAATGCTGC--TGCTTTGGCTTATTGTCTCAGAGACTCCCATATATATTTAAGTGGTCAAAAGAAGCATGTAGTAAATTTTTTATTTCTGACAGTGgcagctgctactgttgctgttgctg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733307 162 - 185818997 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCATGCATATTTTAGTGGTCAAAAGAAGCATGTAGTAAATTTGTTATTTCTGGCAGTGgcagctgctgctgttgctgttgctg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167367969 162 - 192294377 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCATGCATATTTTAGTGGTCAAAAGAAGCATGTAGTAAATTTGTTATTTCTGGCAGTGgcagctgctgctgttgctgttgctg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004007 162 -  30496662 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCATGCATATTTTAGTGGTCAAAAGAAGCATGTAGTAAATTTGTTATTTCTGGCAGTGgcagctgctgctgttgctgttgctg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516599 162 +  21915920 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCATGCATATTTTAGTGGTCAAAAGAAGCATGTAGTAAATTTGTTATTTCTGGCAGTGgcagctgctgctgttgctgttgctg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017638 162 -  90373283 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCACGCATAATTTAATGGTCAAAAGAAGCATATAGTAAGTTTGTTATTTCTGGCAGTGgcagctgctgttgttgctgttgctg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536097 162 +   7543664 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCATGCATATTTTAGTGGTCAAAAGAAGCATGTAGTAAATTTGTTATTTCTGGCAGTGgcagctgctgctgttgctgttgctg
i manLeu1.NW_012103476v1    M 1075 C 0
s colAng1.NW_012120598v1      5293175 162 -  13750039 TCACTGATTGTTTCAGAAAATATTCTGTAAATACAAACTGCCCAAATGCTGC--TGCTGTGGCTTATTGTCTCAGAGACTCCCATGCATATTTTAGTGGTCAAAAGAAGCATGTAGTAAATTTGTTATTTCTGGCAGTGgcagctgctgctgttgctgttgctg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548622 162 +  50472720 TCACTGATTGTTTCAGAAAATATGCTGTAAATACTCACTGCCCAAATGCTGC--TGCTTTGGCTTATGGTCTCAGAGACTCCCATGCATATTTAAGTGGTCAAAAGAAGCATGTAGTAGATCTTTAATTCCTAGCAGTGGCAgctgctgttgctgctgctgctg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726008 162 +  13128814 TCACTGATTGTTTCAGGAAATATTCTGTAAATACTCACTGCCCAAATGCTGC--TGCTTTGGCTTATGGTCTCAGAGACTCCCGTGCATAGTTAAGTGATCAAAAGAAGCACGTAGTAAATCTTTGATTCCTAGAAGTGGCAGCTGCTGTTGCTGCTGCTGCAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971384 162 -  14377064 TCACTGATTGTTTCAGAAAATATTCTGTAAATACTCACTGCCCAAATGCTGC--TGCTTTGGCTTATGGTCTCAGGGACTCCCATGCACATTTAAGTGGTCAAAAGAAGTATGTAGTAAATTTTTGATTCCTAGCAGTGgcagctgctgttgctgctgctgctg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194262 156 -   9889416 TCACTGATTGTTTCAGGAAATGTTCTGTAAATACTCACTGCACAAATGCTGC--TGCTTTGGCTTATGGTCTCAGAGACTCCCATGCATATTTAAGCGGTCAGAAGAAGCATGCAGTAAATCTTTGATTCCTAGCAGTGgcagctgctgttgctgct------g
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23743658 159 +  47401472 TCACTGATTGTTTCAGAAAGTATTCTGTAAATACACACTGCCAAAATGCTGCCACTTTTTGGTTTATAGTCTCAGAGACCCCTACGCATATTTAAATAGTTGGAAGA--GATGTCATAAATTGTTGATTTCTGGCAATGgcagctgctgctgttgctgctg---
i micMur3.chr31             C 0 I 44
s otoGar3.GL873528           24912915 151 -  38779656 TCATTGATTATTTCAGAAAGTATTCTGTAAATACACATTGCCCCAGTGCTAT--TTATTTGGCTTACAGTCTCAGAGGTTCCCATGCATATTTAAATCGTTGTAAGA--TACATAGTCAATTGTTGATTTCTGGCAA------CTGCTGCTGTTGCTGATG---
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=79651.000000
s hg38.chr21_GL383579v2_alt    161234 9 +    201197 cttctTGAG
s panTro5.chr21               8773409 9 +  33445071 cttctTGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312510 9 +  46275980 cttctTGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295453 9 -  13858734 cttctTGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319418 9 +  32716333 cttctTGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733469 9 - 185818997 cttctTGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368131 9 - 192294377 cttctTGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004169 9 -  30496662 cttctTGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516761 9 +  21915920 cttctTGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017800 9 -  90373283 cttctTAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536259 9 +   7543664 cttctTGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293337 9 -  13750039 cttctTGTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548784 9 +  50472720 ctTCTTCAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726170 9 +  13128814 CTTCTTGAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971546 9 -  14377064 cttctTGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194418 9 -   9889416 cttctTGAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913066 7 -  38779656 CCTTTTG--
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23743817 44 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1136832.000000
s hg38.chr21_GL383579v2_alt    161243 104 +    201197 TCTACTTAGTTTGTCAGCCA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGTATTCCTTCCTT-----ATGTGTGTTTATCTCATATGTCAGGATTTTGCTTTTA
s panTro5.chr21               8773418 104 +  33445071 TCTACTTAGTTTGTCAGCCA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGTATTCCTTCCTT-----ATGTGTGTTTATCTCATATGTCAGGATTTTGCTTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312519 104 +  46275980 TCTACTTAGTTTGTCAGCCA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGTATTCCTTCCTT-----ATGTGTGTTCATCTCATATGTCAGGATTTTGCTTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295462 104 -  13858734 TCTACTTAGTTTGTCAGCCA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGTATTCCTTCCTT-----ATGTGTGTTTATCTCATATGTTAGGATTTTGCTTTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319427 104 +  32716333 TCTACTTAGTTTGTCAGCCA-TTTTCTTCTGTTATATT-TCTTTTCCAGTTCTGTGGTATTCCTTCCTT-----ATGTGTGTTTATCTCATATGTCAGGATTTTGCTTTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733478  99 - 185818997 TCTACTTAGTTTGTCAGACA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTTTCATATGTCAGGATTTTGCTTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368140  99 - 192294377 TCTACTTAGTTTGTCAGACA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTTTCATATGTCAGGATTTTGCTTTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004178  99 -  30496662 TCTACTTAGTTTGTCAGACA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTTTCATATGTCAGGATTTTGCTTTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516770  99 +  21915920 TCTACTTAGTCTGTCAGACA-TTTTCTTCTATTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTCTCATATGTCAGGATTTTGCTTTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017809  99 -  90373283 TCTACTTAGTTTGTCAGACA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTCTCATATGTCAGGATTTTGCTTTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536268  99 +   7543664 TCTACTTAGTCTGTCAGACA-TTTTCTTCTATTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTCTCATATGTCAGGATTTTGCTTTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293346  99 -  13750039 TCTACTTAGTTTGTCAGCCA-TTTTCTTCTGTTATATT-TCTTTTCCAATTCTGTGGT-----TTCCTT-----ACGTGTGTTTGTCTCATATGTCAGGATTTTGCTTTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548793 109 +  50472720 TCTACTTAGTTTGTCAGCCA-TTTTGTTCTGTCATGTT-TCTTTCCCAATTCTGTGGCATTCCTTCCTTAAGGAATGTGTGTCTATCTTGTATGTTAGGATTTTGCTTTTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726179 104 +  13128814 TCTACTTAGTTTGTCAGCCA-TTATTTTCTGTTATGTT-TCTTTCCCAATTCTGTGATATTCCTTCCTT-----ACGTGTGTCTATCTTGTATGTTAGGGTTTTGCTTTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971555 105 -  14377064 TCTACTTAGTTTGTCAGCCATTTTTTTTCTGTTATGTT-TCTTTCCCAATTCTGTGATATTCCTTCCTT-----ATGCGTGTCTATCTCGTATGTTAGGATTTTGCTTTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194427 104 -   9889416 TATACTTAGTATGTCAGCCA-TTTTTTTCTGTTATGTT-TCTTTCCTAATTCTGTGATATTTCTTCCTT-----ATGTGTGTCTGTCTCGTATGTTAGGATTTTGCTTTTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23743861 104 +  47401472 TCTACCTAGTCTGTCAGCTA-TATTCTTCTGTTATTTCATGTTTTCTAATTTTGTGGT-TCCTTTTCTT-----ATGTCTGTCTATCTCATATGTGAGGATTTTGGTTTTA
i micMur3.chr31             I 44 I 630
s otoGar3.GL873528           24913073  92 -  38779656 -------AGTTTGCCAGCCA-TATTCTTCTGTTATTTC-TCTTTTTGAATTCTTTGGT-GCCCTTCATT-----A----AGTTTATCTCATATGTCAGCATTTTGCTTTTA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=1157420.000000
s hg38.chr21_GL383579v2_alt    161347 115 +    201197 TTGTCATTGCTATGTCAATACAGAATTTTGAAAAAA----TATTTTTATTCAGTATAATTGACATATTTTGACTTTGAAGTTTAGAATAACTA----AAATATTAATGAATTTCATTTAATGA
s panTro5.chr21               8773522 115 +  33445071 TTGTCATTGCTATGTCAATACAGAATTCTGAAAAAA----TATTTTTATTCAGTATAATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAATGAATTTCATTTAATGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312623 115 +  46275980 TTGTCATTGCTATGTCAATACAGAATTCTGAAAAAA----TATTTTTATTCAGTATAATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAATGAATTTCATTTAATGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295566 115 -  13858734 TTGTCATTGCTATGTCAATACAGAATTTTGAAAAAA----TATTTTTATTCAGTATAATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAATGAATTTCATTTAATGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319531 115 +  32716333 TTGTCATTGCTATGTCAATACAGCATTTTGAAAAAA----TATTTTTATTCAGTGTAATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAATGAATTTCATTTAATGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733577 115 - 185818997 CTGTCATTACTAAGTCAATACAGCATTTTGAAAAAA----TGTTTTTATTAAGTATGATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAACGAATTCCATTTAATGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368239 115 - 192294377 CTGTCATTACTAAGTCAATACAGCATTTTGAAAAAA----TGTTTTTATTAAGTATGATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAACGAATTCCATTTAATGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004277 115 -  30496662 CTGTCATTACTAAGTCAATACAGCATTTTGAAAAAA----TGTTTTTATTAAGTATGATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAACGAATTCCATTTAATGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516869 115 +  21915920 CTGTCATTACTAAGTCAATACAACATTTTGAAAAAA----TATTTTTATTAAGTATGATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAACGAATTCCATTTAATGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20017908 115 -  90373283 CTGTCATTACTAAGTCAATACAGCATTTTGAAAAAA----TATTTTTATTAAGTATAATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAACGAATTCCATTTAATGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536367 115 +   7543664 CTGTCATTACTAAGTCAATACAGCATTTTGAAAAAA----TATTTTTATTAAGTATGATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAACGAATTCCATTTAATGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293445 115 -  13750039 CTGTCATTACTAAGTCAATACAGCATTTTGAAAAAA----TATTTTTGTTAAGTATAATTGACGTATTTTGACTTTGAAGTTTAGAATGACTA----AAATATTAATGAATTCCATTTAATGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26548902 118 +  50472720 TTGTCATAACTAAGTCAATATAGCATTTTGAAAAAAATATTATTTTTATTCAGTGTAATTGACATATTTTGACTTTGAAGTTTAGAGTGACta----aaatattaatgtattctatttaata-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726283 119 +  13128814 TTGTCATTACTAAGCCAATATAGCATTTTGAAAAAAATATTATTGTTATTCAGTACAATTGACATATTTTGACTTTGAAGTTTAGAATGACGa----aaatattaatgtattctatttaataa
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971660 119 -  14377064 TTGTCATTACTAAGTCAATACAGCATTTTGAAAAAAATATTATTTTTATTCAGTAAACTTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAAtattaatgtattctatttaataa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194531 119 -   9889416 TTGTCATCACTATGTCGATATAGCATTTTGAAAAAAGTATTATTTTTATTCAGTATAATTGACATATTTTGACTTTGAAGTTTAGAATGACTA----AAAtattaatgtattctatttaataa
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913165 119 -  38779656 TTGACATTACTAGattaatataatattcaaaaaaattaattattttCAAGTAAAGTAATTGACTTAT----ATATTGAAGTTCAGAATCACTATTTGAACTATTAAGATATTTATCATAATAA
i otoGar3.GL873528          C 0 I 4
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=264773.000000
s hg38.chr21_GL383579v2_alt    161462 40 +    201197 TTTA-TTAAATTAATATATTTAATGTGACATGTTTATATAG
s panTro5.chr21               8773637 40 +  33445071 TTTA-TTAAATTAATATATTTAATGTGACATGTTTATATAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312738 40 +  46275980 TTTA-TTAAATTAATATATTTAATGTGACATGTTTATATAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295681 40 -  13858734 TTTA-TTAAATTAATATATTTAATGTGACATGTGTATATAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319646 40 +  32716333 TTTA-TTAAATTAATATATTTAATGTGACATGTTTATATAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733692 32 - 185818997 T---------TTAATATATTTAAAGTGACATGTTTATATAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368354 32 - 192294377 T---------TTAATATATTTAAAGTGACATGTTTATATAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004392 32 -  30496662 T---------TTAATATATTTAAAGTGACATGTTTATATAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13516984 32 +  21915920 T---------TTAATATATTTAAAGTGACATGTTTATATAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20018023 32 -  90373283 T---------TTAATATATTTAATGTGACATGTTTATATAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536482 32 +   7543664 T---------CTAATATATTTAATGTGACATGTTTATATAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293560 32 -  13750039 T---------TTAATATATTTAATGTGACATGTTTATATAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26549020 38 +  50472720 ---atttaatttaatttCTTTGTTGTGACATGTTTATATAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726402 41 +  13128814 tttatttaatttaatGTATTTGTTGTGACACGTTTATATAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971779 41 -  14377064 tttatttaatttaatgtatttgttgtgacatgtttatatag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194650 41 -   9889416 tttatttaatttaatgtattttttgtgacatgtttatatag
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24913284  4 -  38779656 I

a score=63822.000000
s hg38.chr21_GL383579v2_alt    161502 9 +    201197 TTATAGTAC
s panTro5.chr21               8773677 9 +  33445071 TTATAGTAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312778 9 +  46275980 TTATAGTAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295721 9 -  13858734 TTATAGTAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319686 9 +  32716333 TTATAGTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733724 9 - 185818997 TTATAGTAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368386 9 - 192294377 TTATAGTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004424 9 -  30496662 TTATAGTAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517016 9 +  21915920 TTGTAGTAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20018055 9 -  90373283 TTATAGTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536514 9 +   7543664 TTATAGTAC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293592 9 -  13750039 TTATAGTAC
i colAng1.NW_012120598v1    C 0 C 0
s aotNan1.NW_018487195v1      9194691 9 -   9889416 ttatAGTAC
i aotNan1.NW_018487195v1    C 0 I 22
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13971820 0 -  14377064 C
e canFam3.chr31              18070382 813 +  39895921 I
e calJac3.chr21              26549058 0 +  50472720 C
e saiBol1.JH378168            8726443 0 +  13128814 C
e otoGar3.GL873528           24913284 4 -  38779656 I

a score=1439783.000000
s hg38.chr21_GL383579v2_alt    161511 316 +    201197 ATCtttttttttttttttttttttttttgagacagagtctccctctgtcccccaggctggagtgcagtggcgtgatcttggctcactgcaacctccgcctcccaggttcaagtgattctcctgccttagcctcccgagtagctgggactaaaggtgcatgccaccacgcctggctaagttttgtatttttagtagacacggggcttcaccatgttggccaggatggtcttgatccttgatctcttgaccttgtgatctgcctgcctcggcctcccaatgtgctgggattgcaggcgtgagccaccgcatccagccA
s panTro5.chr21               8773686 304 +  33445071 ATCtttttttttttttttttttt-----gagacagagtctcgctctgtcccccaggctggagtgcagtggcgtgatcttggctcactgcaacctctgcctcccaggttcaagtgattctcctgccttagcctcccgagtagctgggactaaaggtgcatgccaccatgcctggctaagttttgtatttttagtagacacggggcttcaccatgttggccaggatggtcttgatc-------tcttgaccttgtgatctgcctgcctcggcctcccaatgtgctgggattgcaggcgtgagccactgcatccagccA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22312787 307 +  46275980 ATCtttttttttttttttttttt--ttgtagacagagtctcgctctgtcccccaggctggagtgcagtggcgtgatcttggctcactgcaacctctgcctcccaggttcaagtgattctcctgccttagcctccctagtagctgggactaaaggtgcatgccaccatgcctggctaagttttgtatttttagtagacacggggcttcaccatgttggccaggatggtcttgatc-------tcttgaccttgtgatctgcctgcctcggcctcccaatgtgctgggattgcaggcgtgagccaccgcatccagccA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8295730 306 -  13858734 ATCtttttttttttttttttttt---ttgagacagagtctcgctctgtcccccaggctggagtgcagtggcgtgatcttggctcactgcaacctccgcctcccaggttcaagtgattctcctgccttagcctcccgagtagctgggactaaaggtgcatgccaccgtgcctggctaagttttgtatttttagtagacatggggcttcaccatgttggccaggatggtcttgatc-------tcttgaccttgtgatctgcctgcctcggcctcccaatgtgctgggattgcaggcgtgagccaccgcatccagccA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319695 294 +  32716333 ATCTTAttttttt---------------gagacggagtctcactccataccccaggctggagtgcaatggtgtgatcttggctcactgcaacctccgctttccaggttcaagtgattctcctgcctcagcctcctgagtagctgggactaaaggtgcatgccaccacgcctggctaagttttgtatttttagtagagacggggcttcaccatgttagccaggatggtcttgatc-------tcttgaccttgtgatctgcctgcctcggcccctcaatgtgctgggattgcaggcatgagccactgcatccagccA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160733733 289 - 185818997 -------tttttgg-ttttcttt-------gacagagtcttgctctgt-caccaggccagagtgcagtggcacgatcttcgctcactgcaacctccacctcccgggttcaagcgattctcctgcctcagcctcctgagtagctgggactacaggcgcttgccaccacgccaggctaacttttgta-ttttagtagagatggggctttaccatgttggccaggatagcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaacgtgctgggattacaggcatgagacacctcacccagccA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368395 291 - 192294377 -------tttttggtttttcttt-------gacagagtcttgctctgt-caccaggccagagtgcagtggcacgatcttcgctcactgcaacctccacctcccgggttcaagcgattctcctgcctcagcctcctgagtagctgggactacaggcgcttgccaccacgccaggctaacttttgtatttttagtagagatggggctttaccatgttggccaggatagcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaacgtgctgggattacaggcatgagacacctcacccagccA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004433 291 -  30496662 -------tttttggtttttcttt-------gacagagtcttgctctgt-caccaggtcagagtgcagtggcacgatcttcgctcactgcaacctccacctcccgggttcaagcgattctcctgcctcagcctcctgagtagctgggactacaggcgcttgccaccacgccaggctaacttctgtatttttagtagagatggggctttaccatgttggccaggatagcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaacttgctgggattacaggcatgagacacctcacccagccA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517025 290 +  21915920 -------tttttggtttttcttt-------gacagagtcttgctctgt-caccaggccagagtgcagtggcacgatcttcgctcactgcaacctccacctcccgggttcaagcgattctcctgcctcagcctcctgagtagctgggattacaggcatgcgccacaatgcccatctaa-ttttgtatttttagtagagatggggctttaccatgttggccaggatagcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaacgtgctgggattacaggcatgagacacctcacccagGCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20018064 291 -  90373283 -------tttttggtttttctct-------gacagagtcttgctctgt-caccaggccagggtgcagtggcacgatcttcgctcactgcaacctccacctcccgggttcaagcgattctcctgcctcagcctcctgagtagctgggactacaggcgctcgccaccacgccaggctaacttttgtatttttagtagagatggggctttaccatgttggccaggatagcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaacgtgctgggattacaggcatgagacatctcacccagccA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536523 291 +   7543664 -------tttttggtttttcttt-------gacagagtcttgctctgt-caccaggccagagtgcagtggcacgatcttcgctcactgcaacctctacctcccgggttcaagcgattctcctgcctcagcctcctgagtagctggaactacaggcgcttgccaccacgcccggctaacttttgtatttttagtagagatggggctttaccatgttggccaggatagcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaacgtgctgggattacaggcatgagacacctcacccagccA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293601 260 -  13750039 -------tttttgttttttcttt-------gatagagtcttgctctgt-caccaggctggagtgcagtggcacaatcttggctcactgcaacctccacctcccaggttcaagtgattctcctgcctca-------------------------------gccaccatgccaggctaacttttatatttttagtagagatggggcttcaccatgttggccaggatggcctcaatc-------tcttg---tcatgatccgtctgcctcagcctcccaaagtgctgggattacaggcatgagacacctcacccagccA
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13971820   0 -  14377064 C
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9194700  22 -   9889416 I
e calJac3.chr21              26549058   0 +  50472720 C
e saiBol1.JH378168            8726443   0 +  13128814 C
e otoGar3.GL873528           24913284   4 -  38779656 I

a score=270716.000000
s hg38.chr21_GL383579v2_alt    161827 33 +    201197 TTATAGTACATCTTATAACAATTTCTGTTCTAG
s panTro5.chr21               8773990 33 +  33445071 TTATAGTACATCTTATAAAAATTTCTGTTCTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313094 33 +  46275980 TTATAGTACATCTTATAAAAATTTCTGTTCTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296036 33 -  13858734 TTATAGTACATCTTATAAAAATTTCTGTTCTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9319989 33 +  32716333 TTATAGTACATCTTATAAAAATTTCTGTTCTAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734022 33 - 185818997 TTATAGTGCATCTTACAAAAATTTCTGTTCTAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368686 33 - 192294377 TTATAGTGCATCTTACAAAAATTTCTGTTCTAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004724 33 -  30496662 TTATAGTGCATCTTACAAAAATTTCTGTTCTAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517315 33 +  21915920 TTATAGTGCATCTTACAAAAATTTCTGTTCTAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20018355 33 -  90373283 TTATAGTGCATCTTACAAAAATTTCTGTTCTAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3536814 33 +   7543664 TTATAGTGCATCTTACAAAAATTTCTGTTCTAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293861 33 -  13750039 TTATAGTACATCTTACAAAAATTTCTGTTCTAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26549058 31 +  50472720 TTATAGTACATCTTGTAA-AATTTCTG-GCTAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726443 31 +  13128814 TTATAGTACATCTTGCAA-AATTTCTG-ACTAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971820 31 -  14377064 ttatAGTACATTTTGTAA-AATTTCTG-TCTAG
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24913288 32 -  38779656 TTATAGTACTTATCATAAAAA-TTATACCCTAA
i otoGar3.GL873528          I 4 C 0
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9194700 22 -   9889416 I

a score=1873260.000000
s hg38.chr21_GL383579v2_alt    161860 202 +    201197 GATAAATTTTATGCATTTAAAC-TTTATCACAAAAATAATATGGAACTCATCTGACCCTAAAAGGAGTGACATAGGCAACATTACATTACATAGGCAACATAGTCATATTCGCAGTTAATTTTAATAGTTTGAGTATCTTTGAGTGAAGAGAT----AAGTCATCCTTACTTGTGAGAGCAATGTTGCAAACATCAAACTAGGCTCA
s panTro5.chr21               8774023 202 +  33445071 GATAAATTTTATGCATTTAAAC-TTTATCACAAAAATAATATGGAACTCATCTGACCCTAAAAGGAGTGACATAGGCAACATTACATTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGAGTGAAGAGAT----AAGTCATCCTTACTTGTGAGAGGAATGTTGCAAATATCAAACTAGGCTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313127 202 +  46275980 GATAAATTTTATGCATTTAAAC-TTTATCACAAAAATAATATGGAACTCATCTGACCCTAAAAGGAGTGACACAGGCAACATTACATTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGAGTGAAGAGAT----AAGTCATCCTTACTTGTGAGAGCAATGTTGCAAATATCAAACTAGGCTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296069 202 -  13858734 GATAAATTTTATGCATTTAAAC-TTTATCACAAAAATAATATGGAACTCATCTGACCCTAAAAGGAGTGACATAGGCAACATTACATTGCATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGAGTGAAGAGAT----AAGTCATCCTTACTTGTGAGAGCAATGTTGCAAACATCAAACTAGGCTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320022 203 +  32716333 GATAAACTTTATGCATTTAAACTTTTATCACAAAAATAATATGGAACTCATCTGACCCTAAAAGGAGTGACATAGGCAACATTCCATTACATAGGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTGAGCACCCTTGAGTGAAAAGAT----AAGTCATCCTTACTTGTGAGAGCAATGTTGCAAACATCACACTAGGCTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734055 201 - 185818997 GATAAATGTTACGCATTTAAAC-TTTATCACAAAAACAGTATGAAACTCATCTGACCCT-AAAGGAGTGACATAGGCAACATTACATTACATAAGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTTAGTGAAAAGAT----AAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368719 201 - 192294377 GATAAATGTTATGCATTTAAAC-TTTATCACAAAAACAGTATGAAACTCATCTGACCCT-AAAGGAGTGACATAGGCAACATTACATTACATAAGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTTAGTGAAAAGAT----AAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004757 201 -  30496662 GATAAATGTTATGCATTTAAAC-TTTATCACAAATACAGTATGAAACTCATCTGACCCT-AAAGGAGTGACATAGGCAACATTACATTACATAAGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTTAGTGAAAAGAT----AAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517348 201 +  21915920 GATAAATGTTATGCATTTAAAC-TTTATCACAAAAACAATATGAAACTCATCTGACCCT-AAAGGAGTGACATAGGCAACATTACATTACATAAGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTTAGTGAAAAGAT----AAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20018388 201 -  90373283 GATAAATGTTATGCATTTAAAC-TTTATCACAAAAACAATATGAAACTCATCTGACCCT-AAAGGAGTGACATAGGCAACATTACATTACATAAGCAGCATAGTCATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTGAGTGAAAAGAT----AAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i chlSab2.chr2              C 0 I 327
s manLeu1.NW_012103476v1      3536847 201 +   7543664 GATAAATGTTATGCATTTAAAC-TTTATCACAAAAACAATATGAAACTCATCTGACCTT-AAAGGAGTGACATAGGCAACATTACATTACATAAGCAACATAGTCATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTTAGTGAAAAGAT----AAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5293894 199 -  13750039 GATAAATGTTATGCATTTAAAC-TTTATCACAAAAACAATATGAAACTCATTTGACCCT-AAAGGAGTGACATAGGTAACATTACATTACATAACCAA------CATATTCACAGTTAATTTTAATAGTTTAAGCATCTTTGAGTGAAAAGATAAGGAAGGCCTCCTAACTTGTGAGAGAAATGTTGCAAACATCACACTAGGTTCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26549089 193 +  50472720 GATAAATTTTAGGCATTTAAAC-TTTATCATAAAAATAATATGGAACCCATCTGACCCTAAAGAGAGTGACATAGGCAGCACTACATTACACAGGCAACATAATCATATTCACAGTTAATTTTAATAGTTTGAGCATCTTTGAGGGAAAAGGG----AAGTCATCAGTACTTGTGAAAGAAATGTTGCAAACATCACA---------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8726474 199 +  13128814 GATAAATTTTAGGCATTTAAAC-TTTATTATAAAAATAATATGGAACCCATCTGACCCTAAAAAGAGTGACATAGGCAACACTACGTTATACAGGCAACATAATCATATTCACAGTTAATTTTAACAGTTTGAGCATCTTTGAGTGAAAAGAG----AAGTGATCCTTACTTGTGAAAGAAATGT---AAACATCACACTAGGTTCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13971851 195 -  14377064 GATAAATTTCATGCATTTAAAC-TTTATCATAAAAATAATATGGAACCCATCTGACCCTAAAAGGAGTGACATAGGCAACACTATATTATACAGGCAACATAATCATATTCACAGTTAATTTTAGTAGTTTGAGGATCTTTGAGTAAAAAG-----------ATCCTTACTTGTGAAAGAAATGTTGTAAACATCACACTAGGTTCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194722 202 -   9889416 GATAAATTTTAGGCATTTAAAC-TTTATCATAAAAATAATATGGAACCCATCTGACCCTAAAAGGAGTGACATAGGCAACACTACATTACACAGGCAACATAATCATATTCACAGTTAATTTTAACAGTTTGAGCATCTTTGAGTGAAAAGAG----AAGTTATCCTTACTTGTGAAAGAAATATTGTAAACATCACACTAAGTTCA
i aotNan1.NW_018487195v1    I 22 C 0
s otoGar3.GL873528           24913320 104 -  38779656 GAAAAAT-----GCA--------TTTATCACAAAAGTAATATGGGATTCCTCCTATCCC------------------------------------------------ATTAAAAGT---------------------------ATGGAAGGAG----AAGTCATATTTATTTGTGAGAGATAGTTTGCAAACATCA-----------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=2353781.000000
s hg38.chr21_GL383579v2_alt    162062 238 +    201197 CACTATTTTTTATGAAAGGAGATTCCATATGGGAATCAATGAAAGAGTTGAAAATAAGATTTAATTTAATTAAAAGAAACAGAAACAATACATTCTCATACAGTCCAAAGAAGGTAAAAATAAGCATTTGTAGTTCATGT-TGATAATT-GACAAACTTTAAAAGTATATTCTTGACTCTTATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATTAAAGTTTTACTTAAAGATATATC
s panTro5.chr21               8774225 238 +  33445071 CACTATTTTTTATGAAAGGAGATTCCATATGGGAATCAATGAAAGAGTTGAAAATAAGATTTAATTTAATTAAAAGAAACAGAAACAATACATTCTCATACAGTCCAAAGAAGGTAAAAATAAGCATTTGTAGTTCATGT-TGATAATT-GACAAACTTTAAAAGTATATTCTTGACTCTTATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATTAAAGTTTTACTTAAAGATATATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313329 238 +  46275980 CACTATTTTTTATGAAAGGAGATTCCATATGGGAATCAATGAAAGAGTTGAAAATAAGATTTAATTTAATTAAAAGAAACAGAAACAATACATTCTCATACAGTCCAAAGAAGGTAAAAATAAGCATTTGTAGTTCATGT-TGATAATT-GACAAACTTTAAAAGTATATTCTTGACTCTTATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATTAAAGTTTTACTTAAAGATATATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296271 238 -  13858734 CACTATTTTTTATGAAAGGAGATTCCATATGGGAATCAATGAAAGAGTTGAAAATAAGATTTAATTTAATTAAAAGAAACAGAAACAATACATTCTCATACAGTCCAAAGAAGGTAAAAATAAGCATTTGTAGTTCAGGT-TGGTAATT-GACAAACTTTAAAAGTATATTCTTGACTCTTATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATTAAAGTTTTACTTAAAGATATATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320225 238 +  32716333 CACTATTTTTTATGAAAGGAGATTCCATATGGGAATCAATGAAAGAGTTGAAAATAAAATTTAATTGAATGAAAAGGAACAGAAACAATACATTCTCATACAGTCCAAAGGAGGTAAAAATAAGCATCTGTAGTTAATGT-TGATAATT-GAGAAACTTTAAAAGTATATTCTTGAGTCTTATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATTAAAGTTTTACTTAAAGATATATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734256 237 - 185818997 CACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATTTAATTTAATGAAAAGGAACCGAAACAATACATTCTCATACAGTACAAAGGAGGTAAAAATAAGCATCTGTAGGTAATGT-TGATAATT-GACAAACTTTAGAAGTATATTCTTGACTCTCATTAGCTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTAAAGATATATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167368920 237 - 192294377 CACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATTTAATTTAATGAAAAGGAACCGAAACAATACATTCTCATACAGTACAAAGGAGGTAAAAATAAGCATCTGTAGGTAATGT-TGATAATT-GACAAACTTTAGAAGTATATTCTTGACTCTCATTAGCTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTAAAGATATATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5004958 237 -  30496662 CACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATTTAATTTAATGAAAAGGAACCGAAACAATACATTCTCATACAGTACAAAGGAGGTAAAAATAAGCATCTGTAGGTAATGC-TGATAATT-GACAAACTTTAGAAGTATATTCTTGACTCTCATTAGCTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTAAAGATATATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517549 237 +  21915920 TACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATTTAATTTAATGAAAAGGAACCGAAACAATACATTCTCATACAGTACAAAGGAGGTAAAAATAAGTATCTGTAGGTAATGT-TGATAATT-GACAAACTTTAGAAGTATATTCTTGACTCTCATTAGCTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTAAAGATGTATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20018916 237 -  90373283 CACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATTTAATTTAATGAAAAGGAACAGAAACAATACATTCTCATACAGTACAAAGGAGGTAAAAATAAGCATCTGTAGGTAATGT-TGATAATT-GACAAACTTTAGAAATATATTCTTGACTCTCATTAGCTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTAAAGATATATC
i chlSab2.chr2              I 327 C 0
s manLeu1.NW_012103476v1      3537048 237 +   7543664 TACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATTTAATTTAATGAAAAGGAACAGAAACAATACATTCTCATACAGTACAAAGGAGGTAAAAATAAGTATCTGTAGGTAATGT-TGATAATT-GACAAACTTTAGAAGTATATTCTTGACTCTCATTAGCTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTAAAGATGTATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294093 237 -  13750039 CACTATTTTTTATGAAAGGAGACTCCATATGGGAATCAATGAAAG-GTTGAAAATAAAATCTAATTTAATGAAAAGGAGCAGAAACAATACATTCTCATACAGTAAAAAGGAAGTAAAAATAAGCATCTGTAGGTAATGT-TGATAATT-GACAAACTTTAGAAGTATATTCTTGACTCTCATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATTCAAGTTTTACTTCAAGATATATC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26549282 237 +  50472720 --CTATTATTTATGAAAGGAGATGCTGTATGGGAATCAATGAAAGAGTCGAATATAAAATTTAATTCAATGAAAAGGAACAGAAAGAGTACATCCTCATACAGTACGAAGGAGATAAAAACAAGCCTCTGTAGGTAATAT-TGATAATTAGGCAAACTTTAGAAGTATATTCTTGATTCTCATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATGCACATTATACTGAAAGATACATC
i calJac3.chr21             C 0 I 6608
s saiBol1.JH378168            8726673 238 +  13128814 CGCTATTATTTATGAAAGGCGACGCTGTATGGGAATCAACGAAACAGTCTAATATAAAATTTAATTCAATGAAAA-GAACAGAAACAGTACATCCTCACACAGTACAAAGGAGGTAAAAATAAGCATCTGTAGGTAATGC-TGATAATTAGATAAACTTTAGAAGTATATTATTGACTCTCATTAGTTTTAGG--TTCAATCAGGTCTCAGTTAATATGCAAGTTATACTGAAAGATATATC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13972046 234 -  14377064 CGCTATTCTTTATGAAAGGAGACACTGTATGGGAATC----AAAGAGTCGAATATTAAATTTAATTCAATGAAAAGGAACAGAAACAGTGCATCCTCATATAGTACAAAGGAGGT-AAAATAAGCATCTGTAGGTAATGT-TGATAATTAGAGAAACTTTAGAAGTATATTCTTGACTCTCATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATGCAAGTTATATTGAAAGATATATC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9194924 238 -   9889416 CGGTATTCTTTATGAAAGGAGACGCTGTATGGGAATCAATGAAAGAGTCAAATATAAAATTTAATTCAATGAAAAGGAACAGAAACAGTACATCCTCATACAGTACAGAGGACATAAAAATAA-CATCTGTAGGTAATGT-TGATAATTAAACAAACTTTAGAAGTATATTCTTGACTGTCATTAGTTTTAGG--TTCAATCAGGTCCCAGTTAATATGCAAGTTATACTGAAAGATATATC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913424 224 -  38779656 CACTATGCTTTATGAAAGGTGATAC-----------------AAGGGTTGAATTTGAAATTTAATTTAATACAAAGGAACAGAAACAATATGCCCAGATAGAGAACCAAGGAGGCAAAAAAAGGTACTGGCAGTTAATATGTGATAACT-GACAAACTTCATGAGGATGCTCTTTACCCACAGTAATCTCTAGAATTCAAGCAGAGCCTGATTAATCTTTATTACACTCTTATAGGTATAAT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=822789.000000
s hg38.chr21_GL383579v2_alt    162300 84 +    201197 AACCATATAATG------CTGTTATACTTATTGTTGCCATAAATGGCCTCTCTTTTATTCAGAGACCACACTACAATTTTGGAACTGGAG
s panTro5.chr21               8774463 84 +  33445071 AACCATATAATG------CTGTTATACTTATTGTTGCCATAAATGGCCTCTCTTTTATTCAGAGACCACACTACAACTTTGGAACTGGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313567 84 +  46275980 AACCATATAATG------CTGTTATACTTATTGTTGCCATAAATGGCCTCTCTTTTATTCAGAGACCACACTACAATTTTGGAACTGGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296509 84 -  13858734 AACCATATAATG------CTGTTATACTTATTGTTGCCATAAATGGCCTCTCTTTTATTCAGAGACCACACTACAATTTTGGAACTGGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320463 84 +  32716333 AACCATATAATG------CTGTTATACTTATTGTTGCCATAAATGGCCTCTCTTTTATTCAGAGACCACACTACAATTTTGGAACTTGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734493 90 - 185818997 AACCATATTATGGTCTTATTCTTATGCTTATTGTTACCATAAATGGCCTCTCTTTTATTCAGAGACCACATTGCAATTTTGGAACTACGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369157 90 - 192294377 AACCATATTATGGTCTTATTCTTATGCTTATTGTTACCATAAATGGCCTCTCTTTTATTCAGAGACCACATTGCAATTTTGGAACTACGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005195 90 -  30496662 AACCATATTATGGTCTTATTCTTATGCTTATTGTTACCATAAATGGCCTCTCTTTTATTCAGAGACCACATTGCAATTTTGGAACTACGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517786 90 +  21915920 AACCATATTATGGCCTTATTCTTATGCTTATTGTTACCATAAATGGCCTCTCTTTTATTCAGAGACCACATTGCAATTTTGGAGCTACAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019153 90 -  90373283 AACCATATTATGGTCTTATTCTTATGCTTATTGTTACCATAAATGGCCTCTCTTTTATTCAGAGACCACATTGCAATTTTGGAACTACAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537285 90 +   7543664 AACCATATTATGGCCTTATTCTTATGCTTATTGTTACCATAAATGACCTCTCTTTTATTCAGAGACCACATTGCAATTTTGGAGCTACAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294330 90 -  13750039 AACCATATTACGGTCTTATTCTTATGCTTATTTTTACCATAAATGGCCTCTCTTTTATTCAGAGATCACATTGCAATTTTGGAACTGCAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556127 89 +  50472720 AACCATATAATGCCATTA-TTTTATGCTTATTGTTACCATAAATGCCCTCTTTTTTATTCAGAAACCACATTACAATTTTGGAAGTAGAG
i calJac3.chr21             I 6608 C 0
s saiBol1.JH378168            8726911 90 +  13128814 AGTCTTATAATGCTGTTATTTTTATGCTTATTGTTACCATAAATGCCCTCTTTTTTATTCAGAAAGCACACTACAATTTTGGAACTAGAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13972280 90 -  14377064 AACCATATAATGCTGTCATTTTTATGCTTATTGTTACCATAAATGCCCTTTTTTTAATTCAGAAACCACACTACAATTTTGGAGCTAGAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195162 90 -   9889416 AACCATATAACGCTATTATTTTGATGCTTATTGTTACTATAAATGTCCTCTTTTTTATTCAGAAACCACACTACAATTTTGGAACTAGAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913648 90 -  38779656 AACTGCATAATGCTATTATTATTATGATTGGTATTATCATAAATGCCTCATCTGTTATTCCAAGACCACACAACAATTTGAGAATTAGAC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23743965 630 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=449401.000000
s hg38.chr21_GL383579v2_alt    162384 37 +    201197 TTCAGACCCAGGGTGCTCCATGTCTCCTCTAATATTC
s panTro5.chr21               8774547 37 +  33445071 TTCAGACCCAGGGTGCTCCATGTCTCCTCTAATATTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313651 37 +  46275980 TTCAGACCCAGGGTGCTCCATGTCTCCTCTAATATTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296593 37 -  13858734 TTCAGACCCAGGGTGCTCCATGTCTCCTCTAATATTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320547 37 +  32716333 TTCAGACCCAGGGTGCTCCATGTCTCATCTAATATTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734583 37 - 185818997 TTCAGACCCAGAGTGCTCCATGTCTCCTCTAATATTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369247 37 - 192294377 TTCAGACCCAGAGTGCTCCATGTCTCCTCTAATATTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005285 37 -  30496662 TTCAGACCCAGAGTGCTCCATGTCTCCTCTAATATTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517876 37 +  21915920 TTCAGACCCAGGGTACTCCATGTCTCCTCTAATATTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019243 37 -  90373283 TTCAGACCCAGAGTGCTCCATGTCTCCTCTAATATTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537375 37 +   7543664 TTCAGACCCAGGGTACTCCATGTCTCCTCTAATATTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294420 37 -  13750039 TCCAGACCCAGGGCGCTCCATGTCTCCTCTAATATTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556216 37 +  50472720 TTCAGACCCAGGTTGTTCCATATCACCTCTAATATTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8727001 37 +  13128814 TTCAGACCCAGGTTGTTCCATATCACCTCTAATATTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13972370 37 -  14377064 TTCAGACCCAGGTTGCTCCATATCACCTCTAATATTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195252 37 -   9889416 TTCAGACGTAGGTTGTTCCATATCACCTCTAATATTC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23744595 37 +  47401472 TTCAGACCCAGGTTGTTCCACATCTCCTCTAATATTC
i micMur3.chr31             I 630 I 54
s otoGar3.GL873528           24913738 37 -  38779656 GTCGGACTCAGGTTGTTCCTTATTTCCTCTAATATTC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=230227.000000
s hg38.chr21_GL383579v2_alt    162421 21 +    201197 AAAATAATTTTGTAGTGGATT
s panTro5.chr21               8774584 21 +  33445071 AAAATAATTTTGTAGTGGATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313688 21 +  46275980 AAAATAATTTTGTAGTGGATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296630 21 -  13858734 AAAATAATTTTGTAGTGGATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320584 21 +  32716333 AAAAGAATTTTGTAGTGGATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734620 21 - 185818997 AAAAGAATTTTGTAGTGGATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369284 21 - 192294377 AAAAGAATTTTGTAGTGGATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005322 21 -  30496662 AAAAGAATTTTGTAGTGGATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517913 21 +  21915920 AAAAGAATTTTGTAGTGGATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019280 21 -  90373283 AAAAGAATTTTGTAGTGGATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537412 21 +   7543664 AAAAGAATTTTGTAGTGGATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294457 21 -  13750039 AAAAGAATTTTGTAGTGAATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556253 21 +  50472720 AAAAGAATTTTGTAGTGGATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8727038 21 +  13128814 AAAAGAATTTTGTAGTGGATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13972407 21 -  14377064 AAAAGAGTTTTGTAGTGGATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195289 21 -   9889416 AAAAGAATTTTGTAGTGTATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913775 21 -  38779656 CAAAGAAGTTTGTACTTAACT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I

a score=135992.000000
s hg38.chr21_GL383579v2_alt    162442 14 +    201197 AAATCATTGAATTC
s panTro5.chr21               8774605 14 +  33445071 AAATCATTGAATTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313709 14 +  46275980 AAATCATTGAATTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296651 14 -  13858734 AAATCATTGCATTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320605 14 +  32716333 AGATCATTGAATTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734641 14 - 185818997 AAATCATTGGATTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369305 14 - 192294377 AAATCATTGGATTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005343 14 -  30496662 AAATCATTGGATTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517934 14 +  21915920 AAATCATTGGATTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019301 14 -  90373283 AAATCATTGGATTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537433 14 +   7543664 AAATCATTGGATTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294478 14 -  13750039 AAATCATTGAATTC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556274 14 +  50472720 AAATCATTGAATTC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13972428 14 -  14377064 AAATCATTGAATTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195310 14 -   9889416 AAATCATTGAATTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913796 14 -  38779656 GTATCATTAAACTC
i otoGar3.GL873528          C 0 I 3
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727059  0 +  13128814 C

a score=9555.000000
s hg38.chr21_GL383579v2_alt    162456 1 +    201197 A
s panTro5.chr21               8774619 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313723 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296665 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320619 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734655 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369319 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005357 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517948 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019315 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537447 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294492 1 -  13750039 A
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556288 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13972442 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 I 9
s aotNan1.NW_018487195v1      9195324 1 -   9889416 A
i aotNan1.NW_018487195v1    C 0 I 16
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727059 0 +  13128814 C
e otoGar3.GL873528           24913810 3 -  38779656 I

a score=55109.000000
s hg38.chr21_GL383579v2_alt    162457 10 +    201197 CCGCagatga
s panTro5.chr21               8774620 10 +  33445071 CGGtagatga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313724 10 +  46275980 CGGtagatga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296666 10 -  13858734 CGGtagatga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320620 10 +  32716333 CAGTAGATGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734656 10 - 185818997 CGGTAGGTAa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369320 10 - 192294377 CGGTAGGTAa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005358 10 -  30496662 CGGTAGGTAa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517949 10 +  21915920 CGGtagataa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019316 10 -  90373283 CGGtagataa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537448 10 +   7543664 CGGtagataa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294493 10 -  13750039 TGGtagataa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556289 10 +  50472720 TGGTAAATGA
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13972443  9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e saiBol1.JH378168            8727059  0 +  13128814 C
e otoGar3.GL873528           24913810  3 -  38779656 I

a score=132977.000000
s hg38.chr21_GL383579v2_alt    162467 35 +    201197 cagataggt-gatagatagatgaa-------------------------------------------agatagatagat
s panTro5.chr21               8774630 35 +  33445071 cagataggt-gatagatagatgaa-------------------------------------------agatagatagat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313734 35 +  46275980 cagataggt-gatagatagatgaa-------------------------------------------agatagatagat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296676 35 -  13858734 cagataggt-gatagattgatgaa-------------------------------------------agatagatagat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320630 78 +  32716333 CAGATAGGT-gatagatagatgaaagatagattagatagatagatatagatagatagatagatagatagatagatagat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734666 32 - 185818997 tagatagat-gatagatagat----------------------------------------------agatagacagat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369330 32 - 192294377 tagatagat-gatagatagat----------------------------------------------agatagacagat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005368 32 -  30496662 tagatagat-gatagatagat----------------------------------------------agatagacagat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13517959 32 +  21915920 tagatagat-gatagatagat----------------------------------------------agatagatagat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019326 33 -  90373283 tagatagatagatagatagat----------------------------------------------agatagatagat
i chlSab2.chr2              C 0 I 4
s manLeu1.NW_012103476v1      3537458 32 +   7543664 tagatagat-gataggtagat----------------------------------------------agatagatagat
i manLeu1.NW_012103476v1    C 0 I 4
s colAng1.NW_012120598v1      5294503 31 -  13750039 taaatgata-gatagat-gat----------------------------------------------agatagatagat
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13972443  9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e calJac3.chr21              26556299  0 +  50472720 C
e saiBol1.JH378168            8727059  0 +  13128814 C
e otoGar3.GL873528           24913810  3 -  38779656 I

a score=19897.000000
s hg38.chr21_GL383579v2_alt    162502 8 +    201197 agatagat
s panTro5.chr21               8774665 8 +  33445071 agatagaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313769 4 +  46275980 agat----
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296711 8 -  13858734 agatagat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320708 8 +  32716333 agatagat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734698 8 - 185818997 agatagat
i rheMac8.chr3              C 0 I 9
s macNem1.NW_012015021v1      5005400 8 -  30496662 agatagat
i macNem1.NW_012015021v1    C 0 I 5
s cerAty1.NW_012002954v1     13517991 8 +  21915920 agatagat
i cerAty1.NW_012002954v1    C 0 I 4
s chlSab2.chr2               20019363 8 -  90373283 agatagat
i chlSab2.chr2              I 4 I 9
s colAng1.NW_012120598v1      5294534 7 -  13750039 agataga-
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e macFas5.chr3              167369362 0 - 192294377 C
e cebCap1.NW_016107322v1     13972443 9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e calJac3.chr21              26556299 0 +  50472720 C
e saiBol1.JH378168            8727059 0 +  13128814 C
e otoGar3.GL873528           24913810 3 -  38779656 I
e manLeu1.NW_012103476v1      3537490 4 +   7543664 I

a score=65455.000000
s hg38.chr21_GL383579v2_alt    162510 101 +    201197 ga-----------tagataTTATTTTGTAGTGGATTAAATCTTTGAATTCATGGTAGAT-----GAtagctagctagctagctagctagatagatagataTTATTTTGTAGTGGATA
s panTro5.chr21               8774673 101 +  33445071 ga-----------tagataTTATTTTGTAGTGGATTAAATCTTTGAATTCATGGtagat-----gatagctagctagctagctagctagatagatggataTTATTTTGGAGTGGATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313773  97 +  46275980 ga-----------tagataTTATTTTGTAGTGGATTAAATCTTTGAATTCATGGTAGAT-----GA----tagctagctagctagctagatagatagataTTATTTTGGAGTGGATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296719  99 -  13858734 ga-----------tagataTTATTTTGTAGTGGATTAAATCTTTGAATTCATGGtagat-----gatagctagctagctagctagatagatagatagatattttttt--agtggata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320716 117 +  32716333 gatagataataggtagatattattttgtagtggaataaatctgatagatgatgatagatagatagatagatagatagatagatagatagatagatagataTTATTCTGTAGTGGATA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167369362  33 - 192294377 -----------------------------------------------------------------------agatagatagatagatagatagataga-------------tagata
i macFas5.chr3              C 0 C 0
s colAng1.NW_012120598v1      5294541  45 -  13750039 ----------------------------------------------------------------------tagatagatagatagatagatagaGATA--TTATTTTGTAGTGGATT
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23744632  54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13517999   4 +  21915920 I
e macNem1.NW_012015021v1      5005408   5 -  30496662 I
e rheMac8.chr3              160734706   9 - 185818997 I
e cebCap1.NW_016107322v1     13972443   9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325  16 -   9889416 I
e calJac3.chr21              26556299   0 +  50472720 C
e saiBol1.JH378168            8727059   0 +  13128814 C
e otoGar3.GL873528           24913810   3 -  38779656 I
e manLeu1.NW_012103476v1      3537490   4 +   7543664 I
e chlSab2.chr2               20019371   9 -  90373283 I

a score=30655.000000
s hg38.chr21_GL383579v2_alt    162611 34 +    201197 AAATCATTGAATTCACAGTAGACgatagatgatt
s panTro5.chr21               8774774 34 +  33445071 AAATCATTGAATTCACAGTAGACgatagatgatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313870 34 +  46275980 AAATCATTGAATTCACAGTAGACgatagatgatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296818 34 -  13858734 aaatcattgaattcacagtagacgatagatgatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320833 34 +  32716333 AAATCATTGAATTCACAGTAAACAACagatgatt
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167369395  8 - 192294377 gatagata--------------------------
i macFas5.chr3              C 0 C 0
s colAng1.NW_012120598v1      5294586 16 -  13750039 AATTCATTGAATTCAT------------------
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8727059 30 +  13128814 AAATCATTGAATTCGTGGTAAATGATAGAT----
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13517999  4 +  21915920 I
e macNem1.NW_012015021v1      5005408  5 -  30496662 I
e rheMac8.chr3              160734706  9 - 185818997 I
e cebCap1.NW_016107322v1     13972443  9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e calJac3.chr21              26556299  0 +  50472720 C
e otoGar3.GL873528           24913810  3 -  38779656 I
e manLeu1.NW_012103476v1      3537490  4 +   7543664 I
e chlSab2.chr2               20019371  9 -  90373283 I

a score=24621.000000
s hg38.chr21_GL383579v2_alt    162645 10 +    201197 gataggt--aga
s panTro5.chr21               8774808 10 +  33445071 gataggt--aga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313904 10 +  46275980 gataggt--aga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296852 10 -  13858734 aataggt--aga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320867 12 +  32716333 gataggtagaga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734715 10 - 185818997 gatagat--aga
i rheMac8.chr3              I 9 C 0
s macNem1.NW_012015021v1      5005413 10 -  30496662 gatagat--aga
i macNem1.NW_012015021v1    I 5 C 0
s chlSab2.chr2               20019380 10 -  90373283 gatagat--aga
i chlSab2.chr2              I 9 C 0
s colAng1.NW_012120598v1      5294602 10 -  13750039 GGTAGTt--aga
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13517999  4 +  21915920 I
e macFas5.chr3              167369403  0 - 192294377 C
e cebCap1.NW_016107322v1     13972443  9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e calJac3.chr21              26556299  0 +  50472720 C
e saiBol1.JH378168            8727089  0 +  13128814 C
e otoGar3.GL873528           24913810  3 -  38779656 I
e manLeu1.NW_012103476v1      3537490  4 +   7543664 I

a score=-690.000000
s hg38.chr21_GL383579v2_alt    162655 1 +    201197 g
s panTro5.chr21               8774818 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313914 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296862 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320879 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734725 1 - 185818997 t
i rheMac8.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005423 1 -  30496662 t
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20019390 1 -  90373283 t
i chlSab2.chr2              C 0 C 0
s colAng1.NW_012120598v1      5294612 1 -  13750039 t
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556299 1 +  50472720 G
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13517999 4 +  21915920 I
e macFas5.chr3              167369403 0 - 192294377 C
e cebCap1.NW_016107322v1     13972443 9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e saiBol1.JH378168            8727089 0 +  13128814 C
e otoGar3.GL873528           24913810 3 -  38779656 I
e manLeu1.NW_012103476v1      3537490 4 +   7543664 I

a score=10131.000000
s hg38.chr21_GL383579v2_alt    162656 2 +    201197 ag
s panTro5.chr21               8774819 2 +  33445071 ag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22313915 2 +  46275980 ag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296863 2 -  13858734 ag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9320880 2 +  32716333 ag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734726 2 - 185818997 ag
i rheMac8.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005424 2 -  30496662 ag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518003 2 +  21915920 ag
i cerAty1.NW_012002954v1    I 4 C 0
s chlSab2.chr2               20019391 2 -  90373283 ac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537494 2 +   7543664 ag
i manLeu1.NW_012103476v1    I 4 C 0
s colAng1.NW_012120598v1      5294613 2 -  13750039 ag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556300 2 +  50472720 AG
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e macFas5.chr3              167369403 0 - 192294377 C
e cebCap1.NW_016107322v1     13972443 9 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e saiBol1.JH378168            8727089 0 +  13128814 C
e otoGar3.GL873528           24913810 3 -  38779656 I

a score=73422.000000
s hg38.chr21_GL383579v2_alt    162658 14 +    201197 atagatagatagat
s panTro5.chr21               8774821 14 +  33445071 atagatagatagat
i panTro5.chr21             C 0 I 4
s panPan2.chr21              22313917 14 +  46275980 atagatagatagat
i panPan2.chr21             C 0 I 8
s gorGor5.CYUI01015003v1      8296865 14 -  13858734 agagatagataaat
i gorGor5.CYUI01015003v1    C 0 I 7
s nomLeu3.chr25               9320882 14 +  32716333 atagataaatagat
i nomLeu3.chr25             C 0 I 11
s rheMac8.chr3              160734728 14 - 185818997 atagatagatagat
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167369403  3 - 192294377 -----------gat
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      5005426 14 -  30496662 atagatagatagat
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13518005 14 +  21915920 atagatagatagat
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               20019393 14 -  90373283 atagatacatagat
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3537496 14 +   7543664 atagatagatagat
i manLeu1.NW_012103476v1    C 0 I 1
s colAng1.NW_012120598v1      5294615 14 -  13750039 atagatagatagat
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26556302  2 +  50472720 ------------AT
i calJac3.chr21             C 0 I 1
s cebCap1.NW_016107322v1     13972452 14 -  14377064 atagatacatagat
i cebCap1.NW_016107322v1    I 9 I 1
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9195325 16 -   9889416 I
e saiBol1.JH378168            8727089  0 +  13128814 C
e otoGar3.GL873528           24913810  3 -  38779656 I

a score=924732.000000
s hg38.chr21_GL383579v2_alt    162672 107 +    201197 gatagataTTTAAAGCATAATTA------------------------TATATGC-TTTAAAAACTCTAACAAGAATTATATACAGAAAGAT--AAAACGCAAAGGGCATATAGA----TATTTAAAGCATAAATATGA
s panTro5.chr21               8774839 107 +  33445071 gatagataTTTAAAGCATAATTA------------------------TATATGC-TTTAAAAACTCTAACAAGAATTATATACAAAAAGAT--AAAACGCAAAGGGCATATAGA----TATTTAAAGCATAAATATGA
i panTro5.chr21             I 4 C 0
s panPan2.chr21              22313939 107 +  46275980 gatagataTTTAAAGCATAATTA------------------------TATATGC-TTTAAAAACTCTAACAAGAATTATATACAAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATAAATATGA
i panPan2.chr21             I 8 C 0
s gorGor5.CYUI01015003v1      8296886 107 -  13858734 gatagataTTTAAAGCATAATTA------------------------TATATGC-TTTAATAACTCTAACAAGAATTATATACAAAAAGAT--AAAACGCAAAGGGCATATAGA----TATTTAAAGCATAAATATGA
i gorGor5.CYUI01015003v1    I 7 C 0
s nomLeu3.chr25               9320907 107 +  32716333 gatagataTTTAAAGCATATTTA------------------------TATATGC-TTTAAAAACTCTAACAAGAATTATATACGAAAAGAT--AAAACGCAAAGGGCATATAGA----TATTTAAAGCATAAATATGA
i nomLeu3.chr25             I 11 C 0
s rheMac8.chr3              160734743 107 - 185818997 gatagataTTTAAAGCATATTTA------------------------CATATGC-ATTAAAAACTCTAACAAGAATTATATATCAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATATATATGA
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167369407 107 - 192294377 gatagataTTTAAAGCATATTTA------------------------CATATGC-TTTAAAAACTCTAACAAGAATTATATACCAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATATATATGA
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      5005441 107 -  30496662 gatagataTTTAAAGCATATTTA------------------------CATATGC-TTTAAAAACTCTAACAAGAATTATATACCAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCGTATATATGA
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13518020 107 +  21915920 aatagataTTTAAAGCATATTTA------------------------CATATGC-TTTAAAAACTCTAACAAGAATTATATACCAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATATATATGA
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               20019408 107 -  90373283 gatagataTTTAAAGCATATTTA------------------------CATATGC-TTTAAAAACTCTAACAAGAATTATATACCAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATATATATGA
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3537511 107 +   7543664 gatagataTTTAAAGCATATTTA------------------------CATATGC-TTTAAAAACTCTAATAAGAATTATATACCAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATATATATGA
i manLeu1.NW_012103476v1    I 1 C 0
s colAng1.NW_012120598v1      5294630 108 -  13750039 gatagataTTTAAAGCATATTTA------------------------CATATGCTTTTAAAAACTCTAGCAAGAATTATATACAAAAAGAT--AAAATGCAAAGGGCATATAGA----TATTTAAAGCATATATCTGA
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26556305  75 +  50472720 GATAAATGTTTCAATCATA--TA------------------------TATATGG-TTTAAAAACTCAAACAAGAATTATATACAAAAAGAT--AAAATGCAAAG----------------------------------
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8727089 126 +  13128814 ---AGATATTTAAATCata--tatatatatatatatgtatatatatgtatatGG-TTTAAAAACTCTAACAAGAATTATATACAAAAACAT--AAAATGTAAAGGGCATATATA----TATTTAAAGGATATGTATga
i saiBol1.JH378168          C 0 I 326
s cebCap1.NW_016107322v1     13972467 105 -  14377064 gatagataTTTAAATCATA--TT------------------------TATATGG-TTTAAAAACTCTAACAAGAACTATATACAAAAAGAT--AAAATGCAAAGGGCATATATA----TATTTAAAGGATATATATGA
i cebCap1.NW_016107322v1    I 1 C 0
s aotNan1.NW_018487195v1      9195341 111 -   9889416 GATAGATATTTAAATCATA--TA------------------------TATATGG-TTTAAAAACTCTAACAAGAATTATATACAAAAAGATAAAAAATGTAAAGGGCATATATATATGTATTTAAAGGATATATATGA
i aotNan1.NW_018487195v1    I 16 C 0
e micMur3.chr31              23744632  54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e otoGar3.GL873528           24913810   3 -  38779656 I

a score=428261.000000
s hg38.chr21_GL383579v2_alt    162779 70 +    201197 AGTGAAAAAAGATTCAAAGCACAAAAGTTAGCTATTTCATGGAAG-AAAT---ATCTCTCCTGTCAGTCATTTT
s panTro5.chr21               8774946 73 +  33445071 AGTGAAAAAAGATTCAAAGCACAAAAGTTAGCTATTTCATGGAAG-AAATGATATCTCTCCTGTCAGTCATTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314046 73 +  46275980 AGTGAAAAAAGATTCAAAGCACAAAAGTTAGCTATTTCATGGAAG-AAATGATATCTCTCCTGTCAGTCATTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8296993 73 -  13858734 AGTAAAAAAAGATTCAAAGCACAAAAGTTAGCTATTTCATGGAAG-AAATGATATCTCTCCTGTCAGTCATTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321014 70 +  32716333 AGTGAAAAAAGATTCAAAGCGCAAAAGTTAGCTATTTCATGGCAG-AAAT---ATCTCTCCTGTCAGTCATTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734850 73 - 185818997 AATGTTAAAAGATTCAAAGCACAAAA-TTAGCTATTTCATGGAAGAAAATGATAAATCTCCTGTCAGTCATTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369514 73 - 192294377 AATGTTAAAAGATTCAAAGCACAAAA-TTAGCTATTTCATGGAAGAAAATGATAAATCTCCTGTCAGTCATTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005548 73 -  30496662 AATGTTAAAAGATTCAAAGCACAAAA-TTAGCTATTTCATGGAAGAAAATGATAAATCTCCTGTCAGTCATTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518127 73 +  21915920 AATGTTAGAAGATTCAAAGCACAAAA-TTAGCTATTTCATGGAAGAAAATGATAAATCTCCTGTCAGTCATTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019515 73 -  90373283 AATGTTAAAAGATTCAAAGCACAAAA-TTAGCTATTTCATGGAAGAAAATGATAAATCTCCTGTCAATCATTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537618 73 +   7543664 AATGTTAGAAGATTCAAAGCACAAAA-TTAGCTATTTCATGGAAGAAAATGATAAATCTCCTGTCAGTCATTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294738 73 -  13750039 AATGTAAAAAGATCCAAAGCACAAAA-TTAGCTGTTTCACGGAAGAAAATGATAAATCTCCTGTCAGTCATTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556380 45 +  50472720 -----------AATCAAAGTACAGTA-----------------AG-AAATGGTCTCTGTCCTGTCAGCCATTTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13972572 56 -  14377064 AATAAAAAAAGAATCAAAGCACAGTA-----------------AG-AAATGATCTCTCTCCTGTCAGCCATTTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195452 56 -   9889416 AATAAAAAAAGAATCAAAGCACAGTA-----------------AG-AAATGATCTCTCTCCTGTCAGCCATTTA
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24913810  3 -  38779656 I

a score=112695.000000
s hg38.chr21_GL383579v2_alt    162849 12 +    201197 AAAAAT----TGTATA
s panTro5.chr21               8775019 12 +  33445071 AAAAAT----TGTATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314119 12 +  46275980 AAAAAT----TGTATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297066 12 -  13858734 AAAAAT----TGTATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321084 12 +  32716333 AAAAAT----TGTATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734923 12 - 185818997 AAAAAT----TCTATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369587 12 - 192294377 AAAAAT----TGTATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005621 12 -  30496662 AAAAAT----TGTATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518200 12 +  21915920 AAAAAT----TGTATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019588 12 -  90373283 AAAAAC----TGTATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537691 12 +   7543664 AAAAAT----TGTATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294811 12 -  13750039 AAAAAT----TGTATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556425 12 +  50472720 AAAAAT----TGTATA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13972628 12 -  14377064 AAAAAT----TGTATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195508 12 -   9889416 AAAAAT----TGTATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913813 16 -  38779656 AAAAATACAGTGAAAA
i otoGar3.GL873528          I 3 C 0
e micMur3.chr31              23744632 54 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1386535.000000
s hg38.chr21_GL383579v2_alt    162861 133 +    201197 TGCTTTAAATA-TCCATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCCCAATAAATACTGTTGAACATTTGTTCTTCATTACCTCATACCACCTGCAAT
s panTro5.chr21               8775031 133 +  33445071 TGCTTTAAATA-TCCATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGTAAATAAAAATTGCCCGATAAATACTGTTGAACATTTGTTCTTCATTACCTCATACTACCTGCAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314131 133 +  46275980 TGCTTTAAATA-TCCATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGTAAATAAAAATTGCCCGATAAATACTGTTGAACATTTGTTCTTCATTACCTCATACTACCTGCAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297078 133 -  13858734 TGCTTTAAATA-TCCATATGCCCTTTGCATTTTATCTTTTAGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTTCCCAATAAATACTGTTGAACATTTGTTCTTCATTACCTCATACCACCTGCAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321096 133 +  32716333 TGCTTTAAATA-TCTATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCTCAATAAATACTATTGAACATTTGTTCTTCATTACCTCATACCACCTGCAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160734935 133 - 185818997 TGCTTTAAATA-TCTATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAAAAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369599 133 - 192294377 TGCTTTAAATA-TCTATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005633 133 -  30496662 TGCTTTAAATA-TCTATATGCCCTTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518212 133 +  21915920 TGCTTTAAATA-TCTGTATGCCATTTGCATTTTATCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019600 133 -  90373283 TACTTTAAATA-TCTGTATGCCCTTTGCATTTCATCTTTTTGTATATAATTCTTGTTAAAGTTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537703 133 +   7543664 TGCTTTAAATA-TCTGTATGCCATTTGCATTTTACCTTTTTGTATATAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294823 133 -  13750039 TGCTTTAAATA-TCTATATGCCCTTTGCGTTTTATCTTTTTGTATATCATTCTTGTTAGAGTTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCATTCTGCCTGCAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556437 131 +  50472720 TGCTTTAAATA-TTTATATGCCCTTTGTATCGTATCTGTTTGTATACAATTGTTGTT--AGTTTTCAGCAAATAAAAATTTCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCACACTGTCTGCAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13972640 133 -  14377064 TGCTTTAAATA-TCTATATGCCCTTTGTATCTTATCTTTTTGTATACAATTCTCATTAGAGGTTTCAGCAAATAAAAATTGCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCACAGTGCCTGAAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195520 133 -   9889416 TGCTTTAAATA-TCTACATGCCCTTTGTATCTTCTCTTTTTGTATACAATTCTTGTTAGAGTTTTCAGCAAATAAAAATTTCTCAATAAATGCTACTGAACATTTGTTCTTCATTACCTCACACTACCTGCAAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23744686 133 +  47401472 TGCTTTAAATATTCCA-ATGCCTTTTGCATTTTATTTTTTTGTACATAACTCTTGTTACAGTTTTAAGCAAATAAGTATTACTCAGTAAATTCTATTGAACATTTGTCCTTCACTACATCATACTATCTGCAAT
i micMur3.chr31             I 54 I 53
s otoGar3.GL873528           24913829 132 -  38779656 TGTTTTAGATA-TCCA-ATGTTCTTTGCATTTTATCTTTTTGTATCTAACTCTCATTATAGTTTTAAGCAAATAAAAATGACTCAATAAATTCTATTGAATATGTGTACTTCACTACGTAATATTAATGGCAAC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=404336.000000
s hg38.chr21_GL383579v2_alt    162994 46 +    201197 GATAGGATTATTCTCATGAATATAATTAAATTATTATTGGCACATT
s panTro5.chr21               8775164 46 +  33445071 GATAGGATTATTCTCATGAATATAATTAAATTATTATTGGCACATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314264 46 +  46275980 GATAGGATTATTCTCATGAATATAATTAAATTATTATTGGCACATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297211 46 -  13858734 GATAGGATTATTCTCATGAATATAATTAACTTATTATTGGCACATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321229 46 +  32716333 GATAGGATTATTCTCATGAATATAATTAAATTATTATTGGCACATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735068 46 - 185818997 AATAGGATTATTCTCATGAATGTAATTAAATTATTATTGGCACATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369732 46 - 192294377 AATAGGATTATTCTCATGAATGTAATTAAATTATTATTGGCACATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005766 46 -  30496662 AATAGGATTATTCTCATGAATGTAATTAAATTATTATTGGCACATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518345 46 +  21915920 AATAGGATTATTCTCATGAATGTAATTGAATTATTATTGGTACATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019733 46 -  90373283 CATAGGATTATTCTCATGAATATAATTAAATTATTATTGGCACATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537836 46 +   7543664 AATAGGATTATTCTCATGAATGTAATTAAATTATTATTGGTACATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5294956 46 -  13750039 AATAGGATTATTCTCATGAATATAATTAAATTATTATTGGCACATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556568 46 +  50472720 AATAGGATTATTATCAGGaatataattaaattattattaGCTCATT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13972773 46 -  14377064 AATAGGATTATTATCTTGAGTATAATTAAATTATTATTAGTCCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195653 46 -   9889416 AATAGGATTATTATCATGAATACAATTAAATTATTATTAGTCCATT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24913961 39 -  38779656 ------AACATTATTTAAGATATAATTAAGTTTTTCTTGGGGCAT-
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23744819 53 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=70484.000000
s hg38.chr21_GL383579v2_alt    163040 7 +    201197 ATAAGTA
s panTro5.chr21               8775210 7 +  33445071 ATAAGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314310 7 +  46275980 ATAAGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297257 7 -  13858734 ATAAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321275 7 +  32716333 GTAAGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735114 7 - 185818997 ATAAGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369778 7 - 192294377 ATAAGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005812 7 -  30496662 ATAAGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518391 7 +  21915920 ATAAGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019779 7 -  90373283 ATAAGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537882 7 +   7543664 ATAAGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295002 7 -  13750039 ATAAGTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556614 7 +  50472720 GTAAGTA
i calJac3.chr21             C 0 I 324
s cebCap1.NW_016107322v1     13972819 7 -  14377064 ATAAGTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9195699 7 -   9889416 ATAAGTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23744872 7 +  47401472 ATAAATA
i micMur3.chr31             I 53 C 0
s otoGar3.GL873528           24914000 6 -  38779656 GTAAGT-
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=13600.000000
s hg38.chr21_GL383579v2_alt    163047 1 +    201197 G
s panTro5.chr21               8775217 1 +  33445071 G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314317 1 +  46275980 G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297264 1 -  13858734 G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321282 1 +  32716333 G
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735121 1 - 185818997 G
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369785 1 - 192294377 G
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005819 1 -  30496662 G
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518398 1 +  21915920 G
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019786 1 -  90373283 G
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537889 1 +   7543664 G
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295009 1 -  13750039 G
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556945 1 +  50472720 G
i calJac3.chr21             I 324 C 0
s cebCap1.NW_016107322v1     13972826 1 -  14377064 G
i cebCap1.NW_016107322v1    C 0 I 333
s aotNan1.NW_018487195v1      9195706 1 -   9889416 G
i aotNan1.NW_018487195v1    C 0 I 331
s micMur3.chr31              23744879 1 +  47401472 G
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24914006 1 -  38779656 G
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1501855.000000
s hg38.chr21_GL383579v2_alt    163048 148 +    201197 GCTTTCTTTAATGTAATTTAATTAGTGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTACAGAATTTAAAATAACAGACTATACA--AAAGTATAGAGGTGTATCTGAAGCTGCTTTTGAAAGAGCTTCTTCATCTCTCTCACCAGT
s panTro5.chr21               8775218 148 +  33445071 GCTTTCTTTAATGTAATTTAATTAGTGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTACAGAATTTAAAGTAACAGACTATACA--AAAGTATAGAGGTGTATCTGAAGCTGCTTTTGAAAGAGCTTCTTCATCTCTCTCACCAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314318 148 +  46275980 GCTTTCTTTAATGTAATTTAATTAGTGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTACAGAATTTAAAGTAACAGACTATACA--AAAGTATAGAGGTGTATCTGAAGCTGCTTTTGAAAGAGCTTCTTCATCTCTCTCACCAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297265 148 -  13858734 GCTTTCTTTAATGTAATTTAATTAGTGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTACAGAATTTAAAATAACAGACTATACA--AAAGTATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAGCTTCTTCATCTCTCTCACCAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321283 150 +  32716333 GCTTTCTTTAATGTGATTTAATTAGTGCAATCAAAA-TGCAGAGGCAAATTGACAAGCTAGTGTAGAATTTAAAATAACAGACTATACAATAAAGTATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAACTTTTTCATCTCTCTCACCAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735122 148 - 185818997 GTTTTCTTTAATGTAATATAATTAATGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAACAGACCATACA--AAAATATAGAGGTGTATATGAAGCTTCTTTTGAAAGAGATGCTTCATCTTTCTCACCAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369786 148 - 192294377 GTTTTCTTTAATGTAATATAATTAATGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAACAGACCATACA--AAAATATAGAGGTGTATATGAAGCTTCTTTTGAAAGAGATGCTTCATCTTTCTCACCAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005820 148 -  30496662 GTTTTCTTTAATGTAATATAATTAATGCAATCCAGA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAACAGACCATACA--AAAATATAGAGGTGTATATGAAGCTTCTTTTGAAAGAGATGCTTCGTCTTTCTCACCAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518399 148 +  21915920 GTTTTCTTTAATGTAATATAATTAATGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAACAGACCATACA--AAAATATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAGATGCTTCGTCTTTCTCACCAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019787 148 -  90373283 GTTTTCtttaatgtaatttaattaatgcaatctaaA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAAAAGACTATACA--AAAATATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAGATGCTTCGTCTTTCTCACCAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3537890 148 +   7543664 GTTTTCTTTAATGTAATATAATTAATGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAACAGACCATACA--AAAATATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAGATGCTTCGTCTTTCTCACCAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295010 148 -  13750039 GTTTTCTTTAATGTAATTTAATTAATGCAATCCAAA-TGCAGAGGAAAATTGACAAGCTAGTGTGGAATTTAAAATAACAGACTATACA--AAAATATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAGATGCTTCGTCTTTCTCACTAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26556946 149 +  50472720 GCTTTCTTTAATGTAATTCAATTAATGCAATCTAAAATGCAGAGGAAAATTGACAAGCTAGTGTACAGTTTAAAATAACAGACTATGCA--AAAGTATAGAGGTGTATCTGAAGCTTCTTATGAAAGAGCATCTTTATCTTTCTCACCAGT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13973160 149 -  14377064 GCTTTCTTTAATGTAATTTAACTAATGCAATCTAAAATGCAGAAGAAAATTGACAAGCTAGTGTAGAATTTAAAATAACAGACTATGCA--AAAATATAGAGGTGTATCTGAAGCTTCTTTTGAAAGAGCTTCTTTATCTTTCTCACCAGT
i cebCap1.NW_016107322v1    I 333 C 0
s aotNan1.NW_018487195v1      9196038 149 -   9889416 GCTTTCTTTGATATAATTTAATTAATGCAATCTAAAGTGCAGAGGAAAATTGACCAGCTAGTGTAGAATTTAAAATAACAGACTATGCA--AAAGTGTAGAGGTGTATCTGAAGCTACTTTTGAAAGAGCTTCTTTATCTTTCTCACCAGT
i aotNan1.NW_018487195v1    I 331 C 0
s micMur3.chr31              23744880 140 +  47401472 GTTCTCTTTTATGTAATTTAATTAATGTAGTGCAAA-TG-CAAGGGAAATTGATAAGCTAGTGTAGTATTTAAAACAACAGATTACACA--AAG-------GGCATATCTGAAGCTTCTGTTGACAGAGCTTCTTCATCTTTCTCACTAGT
i micMur3.chr31             C 0 I 581
s otoGar3.GL873528           24914007 147 -  38779656 GTTTTCTTTTACATCACCTAAATAATGTAGTCCAGA-TATTCAGAAAAATTGAGAAGCTAGTGTAGGATTTAAAATAACAGATTATACA--AAGGGATGGAGGAATATCTGAGGCTTTTGTTAACAGGGTTGCTTT-TCTTTCTCTCTACT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=670177.000000
s hg38.chr21_GL383579v2_alt    163196 82 +    201197 GAATTGCTTTAACAGCCCCTTCCTTGGCATATTTTAATCTA-----ATCAACTCAGCAGTGCAGTTCTTGGGAACCAGTATGTCAGT
s panTro5.chr21               8775366 82 +  33445071 GAATTGCTTTAACAGCCCCTTCCTTGGCATATTTTAATCTA-----ATCAACTCAGCAGTGCAGTTCTTGGGAACCAGTATGTCAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314466 82 +  46275980 GAATTGCTTTAACAGCCCCTTCCTTGGCATATTTTAATCTA-----ATCAACTCAGCAGTGCAGTTCTTGGGAACCAGTATGTCAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297413 82 -  13858734 GAATTGCTTTAACAGCCCCTTCCTTGGCATATTTTAATCTA-----ATCAACTCAGCAGTGCAGTTCTTGGGAACCAGTATGTCAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321433 82 +  32716333 GAATTGCTTTAACAGCCCCTTCCTTGGCATATGTTAATCTA-----ATCAACTCAGCAGTGCAGTTCTTGGGAACCAGTATGTCAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735270 81 - 185818997 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAGTAGTGCAATTCTTGAGAACCAGTATGTCGGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167369934 81 - 192294377 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAGTAGTGCAATTCTTGAGAACCAGTATGTCGGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5005968 81 -  30496662 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAGCAGTGCAATTCTTGAGAACCAGTATGTCGGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518547 81 +  21915920 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAGCAGTGCAATTCTTGAGAACCAGTATGTCGGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20019935 81 -  90373283 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAACAGTGCAAGTCTTGGGAACTACTATGTCAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538038 81 +   7543664 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAGCAGTGCAATTCTTGAGAACCAGTATGTCGGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295158 81 -  13750039 GAATTGTTTTAAAAACCCCTTCCTT-GTATATTTTAATCTA-----ATAAATTCAGAAGTGCAATTCTTGAGAACCAGTATGTCGGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557095 82 +  50472720 GAAATGCTTTAACTGCCCTTTCCATGGCGTATTTTAATCTA-----ATCAACTCAGCTGTGCAATTCTTGGGAACAAGTATGTCAGT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13973309 82 -  14377064 GAAATGCTTTAGCTGCCCTTTCTACGGCATATTTTAATCTA-----ATCAACTCAGCTGTGCAATTCTTGGGAATAAGTATGTCAGT
i cebCap1.NW_016107322v1    C 0 I 18
s aotNan1.NW_018487195v1      9196187 82 -   9889416 GAAATGCTTTAACTGCCCTTTCCATGGTGTATTTTAATCTA-----ATCAATTCAGCTGTGCAATTCTTGGGAACAAGTATGTTAGT
i aotNan1.NW_018487195v1    C 0 I 18
s otoGar3.GL873528           24914154 86 -  38779656 GCAGCGTTTTAACATTTTTTTACTTGGCATTTTTCAGTCTACAGTGATCAGCTCAGCAGTGCAGCTA-TAAGGACCATAATGTCAAT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23745020 581 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=383354.000000
s hg38.chr21_GL383579v2_alt    163278 69 +    201197 GATGTGTGCCATGTTTACATTTCAGAAACATAAATAAAGATAATAAACATTGTGATTTATTTAAGTAGT
s panTro5.chr21               8775448 69 +  33445071 GATGTGTGCCATGTTTACATTTCAGAAACATAGATAAAGATAATAAACATTGTGATTTATTTAAGTAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314548 69 +  46275980 GATGTGTGCCATGTTTACATTTCAGAAACATAGAAAAAGATAATAAACATTGTGATTTATTTAAGTAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297495 69 -  13858734 GATGTGTGCCATGTTTACATTTCAGAAACATAGATAAAGATAATAAACATTGTGATTTATTTAAGTAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321515 69 +  32716333 GATGTGTGCCATGTTTACATTTCAGAAACATAGATAAAGATAATAAACACTGTGATTTATTTAAGTAGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735351 67 - 185818997 GATGTGTACCATGTTCACATTCCAGAGATACAGATAAAGATAAT--ACATTGTGATTTATTTAAGTAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370015 67 - 192294377 GATGTGTACCATGTTCACATTCCAGAGATACAGATAAAGATAAT--ACATTGTGATTTATTTAAGTAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006049 67 -  30496662 GATGTGTACCATGTTCACATTCCAGAGATACAGATAAAGATAAT--ACATTGTGATTTATTTAAGTAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518628 67 +  21915920 GATGTGTACCATGTTCACATTCCAGAGATACAGATAAAGATAAT--ACATTGTGATTTATTTAAGTAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020016 67 -  90373283 GATGTGTACTATGTTCACATTCCAGAGATATAGATAAAGATAAT--ACATTGTGATTTATTTAAGTAGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538119 67 +   7543664 GATGTGTACCATGTTCACATTCCAGAGATACAGATAAAGATAAT--ACATTGTGATTTATTTAAGTAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295239 68 -  13750039 GATGTGTACCATGTTCACATTCCAGAGATATAGATAAAGATAAT-AACATTGTGATTTATTTAAGTAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557177 17 +  50472720 -------------------------------------ATATACT---------------TTTACATAGT
i calJac3.chr21             C 0 I 1
s otoGar3.GL873528           24914240 69 -  38779656 TATATGCACTAAGTTTACATCAAAAGAGTATAGATAAAGATATTAAACATTGTGATTTCTTGAGGAAGT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23745020 581 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cebCap1.NW_016107322v1     13973391 18 -  14377064 I
e canFam3.chr31              18070382 813 +  39895921 I
e aotNan1.NW_018487195v1      9196269 18 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1573076.000000
s hg38.chr21_GL383579v2_alt    163347 187 +    201197 CAGCAGGTACTAT--GACTTGTTATTCTCTCCtaattaaata----aaataaataatgaaatagaaaataaaatTGTTTAATCGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTGTAGAAATTTTTTAAA-GGGTATGTTGCATAGGTTATTTTTTGAGAAAACTTTTAACCTTACACA
s panTro5.chr21               8775517 187 +  33445071 CAGCAGGTACTAT--GACTTGTTATTCTCTCCtaattaaata----aaataaataatgaaatagaaaataaaatTGTTTAATCGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTGTAGAAATTTTTTAAA-GGTTATATTGCATAGGTTATTTTTTGAGAAAACTTTTAACTTTACACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314617 187 +  46275980 CAGCAGGTACTAT--GACTTGTTATTCTCTCCtaattaaata----aaataaataatgaaatagaaaataaaatTGTTTAATCGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTGTAGAAATTTTTTAAA-GGTTATATTGCATAGGTTATTTTTTGAGAAAACTTTTAACTTTACACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8297564 186 -  13858734 CAGCAGGTACTAT--GACTTGTTATTCTCTCCtaattaaata----aaataaataatgaaatagaaaataaaATTGTTTAATCGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTGTAGAAATTTTTTAAA--GTTATGTTGCGTAGGTTATTTTTTGAGAAAACTTTTAACCTTACACA
i gorGor5.CYUI01015003v1    C 0 I 320
s nomLeu3.chr25               9321584 187 +  32716333 CAGCAGGTACTAT--GACTTGTTATTCTCTCCtaattaaata----aaataaataatgaaatagaaaataaaatTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTGTAGAAATTTTTTAAA-GGTTATATTGCATAGGTTATTTTTTGAGAAAACTTTTAACCTTACATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735418 188 - 185818997 CAGCAGGTACTAT--GACTTGTTATTCTTTCTGAATTAAATA-AATAAACAAATAATTAAATAGAAAATAAAATTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTATAAA-TTTTTAAA--CTTATAGTGCATAGGTTATGTTTTGAGAAAACTTTTGGCCTTATACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370082 188 - 192294377 CAGCAGGTACTAT--GACTTGTTATTCTTTCTGAATTAAATA-AATAAACAAATAATTAAATAGAAAATAAAATTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTATAAA-TTTTTAAA--CTTATAGTGCATAGGTTATGTTTTGAGAAAACTTTTGGCCTTATACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006116 188 -  30496662 CGGCAGGTACTAT--GACTTGTTATTCTTTCTGAATTAAATA-AATAAACAAATAATTAAATAGAAAATAAAATTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTATAAA-TTTTTAAA--CTTATAGTGCATAGGTTATGTTTTGAGAAAGCTTTTGGCCTTATACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518695 189 +  21915920 CAGCAGGTACTAT--GACTTGTTATTCTTTCTGaattaaata-aataaacaaataattaaatagaaaataaaATTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTATAAA-TTTTTAAA-GCTTATATTGCATAGGTTATGTTTTGAGAAAACTTTTGGCCTTATACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020083 189 -  90373283 CAGCAGGTACTAT--GACTTGTTATTCTTTCTGAATTAAATA-AATAAACAAATAATTAAATAGAAAATAAAATTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTATCAA-TTTTTAAA-GCTTATATTTCATAGGTTATTTTTTGAGAAAACTTTTGGCCTTATACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538186 189 +   7543664 CAGCAGGTACTAT--GACTTGTTATTCTTTCTGaattaaata-aataaacaaataattaaatagaaaataaaATTGTTTAATTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTATAAA-TTTTTAAA-GCTTATATTGCATAGGTTATGTTTTGAGAAAACTTTTGGCCTTATACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295307 189 -  13750039 CAGCAGGTACTAT--GACTCATTATTCTTTCTGaattaaata-aataaacaaataattaaatagaaaataaaATTGTTTAACTGCAGAAGCAACCAAATCATGGAGGTAGATTCATTCTCTATTTCTGTCTCTAAA-TTTTTAAA-GCTTATATTGCATAGGTTATTTTTTGAGAAAACTTTTAGCCTTATACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557195 180 +  50472720 CAGCAGGTACTAT--GACTTGTTATTCTCTCCtaattaaataaaataaatgaataattaaacagaaaataaaattgtttaattGCAGGAGCAACTGAATCATGA----AGATTC----ATTATTTCTGTATATAAA-TTTTTAAA-GGTTACATTGCATAGGTTATTTTTTGAGAAAAC--TTAACCTTACACA
i calJac3.chr21             I 1 C 0
s cebCap1.NW_016107322v1     13973409 182 -  14377064 CAGCAGGTACTAT--GACTTGTTATTCTCTCCTAATTAAATAAAATAAATGAATAATTAAACAGAAA--AAAATTGTTTAATTGCAGAAGCAACAGAATCATGAAGGTAGATTA----TCTATTTCTGTATAGAAA-TTTTTAAA-GGTTACATTGCATAGGTTATTTTTTGAGAAAAC--TTAACCTTAAGCA
i cebCap1.NW_016107322v1    I 18 C 0
s aotNan1.NW_018487195v1      9196287 188 -   9889416 CAGCAGGTGCTAT--GACTTGTTATTCTCTCCTAATTAAATAAAATAAATGAATAATTAAACAGAAAATACAATTGTTTAATTGCAGAAGCAATGGAATCATGAAGGTAGATTCATTATCTATTTCTGTATAAAAA-TGTTTAAA-GGTTACATTGCCTTGGTTATTTTTTGAGAAAAC--TTAACCTTACATA
i aotNan1.NW_018487195v1    I 18 C 0
s otoGar3.GL873528           24914309 189 -  38779656 TGGCAACTGCTATACAGTTTTTTATTCTCTTCTAATTAAGTA----AAATGCATAATT-AGTGACAAGTAAAACTGTTTAACTTCAGGAGCCACAACATCATGGAGGTAGACTAATCCTCTGTTTCTGTATAGACTGTTTTTAACTGGTCATATTGTTTAGTTTCTCCTTTGAGAAAACTTCTAACCCTGAATA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23745020 581 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1639842.000000
s hg38.chr21_GL383579v2_alt    163534 200 +    201197 CTAGAATATTA-ATTTCTTATTTGAAGAAGAGAGAATGT----ATTTGGGATTATGTATTTATTTAAC-AAATTTTTTAATGCTTGCCATTTTCAGGTCCTTTGTAAGTCCCCATGTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtgatatggtttggctgtgttcccacccaaa
s panTro5.chr21               8775704 200 +  33445071 CTAGAATATTA-ATTTCTTATTTGAAGAAGAGAGAATGT----ATTTGGGATTatttatttatttaac-aaattttttaatgcttgccattttcaggtcctttgtaagtccccatgtattcagaaattagtaaaatataaaagatctttgccatcttggttcttaAGGGTGGATGGtgatatggtttggctgtgttcccacccaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22314804 200 +  46275980 CTAGAATATTA-ATTTCTTATTTGAAGAAGAGAGAATGT----ATTTGGGATTatttatttatttaac-aaattttttaatgcttgccattttcaggtcctttgtaagtccccatgtattcagaaattagtaaaatataaaagatctttgccatcttggttcttaAGGGTGGATGGtgatatggtttggctgtgttcccacccaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298070 200 -  13858734 cTAGAATATTA-ATTTCTTATTTGAAGAAGAGAGAATGT----ATTTGGGATTATTTATTTATTTAAC-ACATTTTTTAATGTTTGCCATTTTCAGGTCCTTTGTAAGTCCCCATGTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtgatatggtttggctgtgttcccacccaaa
i gorGor5.CYUI01015003v1    I 320 C 0
s nomLeu3.chr25               9321771 200 +  32716333 CTAGAATATTA-ATTTCTTATTTGAAGAAGAGAGAATGT----ATTTGGGATTatttatttatctaac-aaattttttaatgcttgccattttcaggtcctttataagtccctatgtattcagaaattagtaaaatataaaagatctttgccatcttggttcttaAGGGTGGATGGtaatatggtttggctgtgttcccactcaaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735606 199 - 185818997 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGAATGT----ATTTGGGATTATTTATTTATCTAAC--TCTTTTTTAATGCTTGTCATTTTCAGGTCCTGTGTAAGTCCCCACTTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtaatatggtttggctgggttctcacccaaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370270 199 - 192294377 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGAATGT----ATTTGGGATTATTTATTTATCTAAC--TCTTTTTTAATGCTTGTCATTTTCAGGTCCTGTGTAAGTCCCCACTTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtaatatggtttggctgggttctcacccaaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006304 199 -  30496662 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGAATGT----ATTTGGGATTATTTATTTATCTAAC--TCTTTTTTAATGCTTGTCATTTTCAGGTCCTGTGTAAGTCCCCACTTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtaatatggtttggctgggttctcacccaaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13518884 199 +  21915920 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGAATGT----ATTTGGGATTATTTATTTATCTAAC--TCTTTTTTAATGCTTGTCATTTTCAGGTCCTGTGTAAGTCCCCACTTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtaatatggtttggctgggttctcacccaaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020272 200 -  90373283 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGGATGT----ATTTGGGATTATTTATTTATCTAAC-TTTTTTTTTAATGCTTGCCATTTTCAGGTCCTGTGTAAGTCCCTATTTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGGTGGtaatacggtttggctgggttctcacccaaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538375 199 +   7543664 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGAATGT----ATTTGGGATTATTTCTTTATCTAAC--TCTTTTTTAATGCTTGTCATTTTCAGGTCCTGTGTAAGTCCCCACTTATTCAGAAATTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGGATGGtaatatggtttggctgggttctcacccaaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295496 201 -  13750039 CTAGAATATTT-ATTTCTTACTTGAAGAAGAGAGAATGT----ATTGGGGATTATTTATGTATCTAACATTTTTTTTTAATGCTTGCCATTTTCAGGTCCTGTGTAAGTCCTCACTTATTCAGAAATTAGTAAAATAGAAAAGGTCTTTGCCATCTTGGTTCTTAAGGATGGATGGtaatatggtttggctgggttgtcacccaaa
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557375 204 +  50472720 CGAGAATATTTGATTTCTTATTTGAAGAAGAGAGAATGTGTGCATTTGGGATTATTTATTCATTTAACAAATTTTTTCAGTGCTTGCCA--TTCAGGTCTGGTGTAAGCCCCCACAGATTCAGAAACTAGTAAAATATAAAAGATCTTTGCCATCTTGGTTCTTAAGGGTGAATGATTatatggtgtgactgtgtctccaccaaaa
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13973591 204 -  14377064 TGAGAATATTTGATTTCTTATTTGAAGAAGAGAGAATGTGTGCATTTGGGATTATTTATTCATTTAACAATTTTTTTCAGTGCTTGCCA--TTCGGGTCCAGTGTAAGCCTCCACAGATTCAGAAACTAGTAAAATATAAAAGATCTTTGCCATCTTGATTCTTAAGGGTGAATGATTATACAGCAtgactgtgtctccacccaaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9196475 204 -   9889416 CTAGAATATTTGATTTCTTATTTGAAGAAGAGAGAATATGTGCATTTGGGATTATTTATTTATTTAACAATTTTTTTCAGTGTTTGCCA--TTCAGGTCCAGTGTAAGCCCCCACAGATTCAGAAACTAGTAAAATATAAAAGATCTTTGGCATCTTGGTTCTTAAGGGTGAGTGATTatatggtgtgactgtgtctccacccaaa
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24914498 124 -  38779656 TTAGAATATTT-A-ACCTCATTTGAAGAAGAGAGAATGTGTGTATTTGGGATTGtttgtacatttaac---------aaatgtttatt--------------------------------------ttagta--------------cttaccat--------ttgggggtgctgtgtaa---------gttgtg--cttattcaaa
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23745020 581 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=825430.000000
s hg38.chr21_GL383579v2_alt    163734 104 +    201197 tctcatcttgaattgtagctcccataattcccatgtgttgcaggagggacc-tggtgggagataattgaatcatggtggcggttcccccatgctgttccagttgt
s panTro5.chr21               8775904 104 +  33445071 tctcatcttgaattgtagctcccataattcccatgtgttgcaggagggacc-tggtgggagataattgaatcatggtgacggttcccccatgctgttccagttgc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315004 104 +  46275980 tctcatcttgaattgtagctcccataattcccatgtgttgcaggagggacc-tggtgggagataattgaatcatggtgacggttcccccatgctgttccagttgc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298270 104 -  13858734 tctcatcttgaattgtagctcccataattcccatgtgttgcaggagggacc-tggtgggagatcattgaatcatggtggcggttcccccatgctgttccagttgt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9321971 104 +  32716333 tctcatcttgaactttagctcccataattcccatgtgttgcaggagggacc-tggtgggagataattgaatcatggtgtgggttcccccatgctgttccagttgt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735805 104 - 185818997 tctcatctggaattgtagctcccataattctcatgtgttgtgggagggacc-tgatgggagataattgagtcatagtgttggttcccacatactgctctggtttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370469 104 - 192294377 tctcatctggaattgtagctcccataattctcatgtgttgtgggagggacc-tgatgggagataattgagtcatagtgttggttcccacatactgctctggtttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006503 104 -  30496662 tctcatctggaattgtagctcccataattctcatgtgttgtgggagggacc-tgatgggagataattgagtcatagtgttggttcccacatactgctctggtttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519083 104 +  21915920 tctcatctggaattgtagctcccataattctcatgtgttgtgggagggacc-tgatgggagataattgagtcatagtgttggttcccacatactgctctggtttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020472 104 -  90373283 tctcatctggaattgtagctcccataattctcatgtgttgtgggagggacc-tgatgggagataattgaatcatggtgttggttcccccatactgctccggtttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538574 104 +   7543664 tctcatctggaattgtagctcccataattctcatgtgttgtgggagggacc-tgatgggagataattgagtcatagtgttggttcccacatactgctctggtttt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295697 104 -  13750039 tctcatctggaattgtagctcccataattctcatgtgctgtgggagggacc-tgatggaaaataattgaatcatggtgttggttcccccctactgctctagtttt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557579 104 +  50472720 tcttatcttgaattgtagctcctattattcacatctgttgc-ggggggaccttggtgggacataattgaatcatgtgggctgttcccccatactgttatagttgt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13973795 105 -  14377064 tctcatcttgaattgtagctcccattattcccatatgttgcaggagggaccttggtgggagataatcgaatcatgtgggctcttcccccatactgttctagttgt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9196679 104 -   9889416 tctcatcttgaattgtagctcccattattcccatatgttgcaggagggacc-tggtgggagataattgaatcatgtgggcggttcccccatactgttctagttgt
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23745020 581 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24914622   0 -  38779656 C

a score=2306577.000000
s hg38.chr21_GL383579v2_alt    163838 277 +    201197 aatgaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttgcctcttattttctctctcgtctgccggatataagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaac--tgagtccattaaacctctttttctttataaattacccagtctcaagtatgtctttatcagcagcatgaAGATGAGAAAGAAAGCAGTGGAGGTCCACTTCTTGCACCAGAAACGGTTTTTATTCTATATATTAT
s panTro5.chr21               8776008 277 +  33445071 aatgaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttacctcttattttctctctggtctgccggatataagacatgccttttgccttctgccaagattgtgaggcctcctcagccacgtggaac--tgagtccattaaacctctttttctttataaattacccagtctcaagtatgtctttatcagcagcatgaAGATGAGAAAGAAACCAGTGGAGGTCCACTTCTTGCACCAGAAACGGTTTTTATTCTATATATTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315108 277 +  46275980 aatgaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttgcctcttattttctctctggtctgccggatataagacatgccttttgccttctgccaagattgtgaggcctcctcagccacgtggaac--tgagtccattaaacctctttttctttataaattacccagtctcaagtatgtctttatcagcagcatgaAGATGAGAAAGAAAGCAGTGGAGGTCCACTTCTTGCACCAGAAACGGTTTTTATTCTATATATTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298374 276 -  13858734 aatgaataagtctcatgaaatctgatgg-tttataagggtaaaccacttttgcttgcctcttattttctctcttgtctgctggatataagacatgccttttgccttctgccaagattgtgaggcctcctcagccacgtggaac--tgagtccattaaacctctttttctttataaattacccaatctcaagtatgtctttatcagcagcatgaAGATGAGAAAGAAAGCAGTGGAGGTCCACTTCTTGCACCAGAAACGGTTTTTATTCTATATATTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322075 270 +  32716333 aatgaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttgcctcttactttctctc--gtctgccggatataagacatgccttt-------tgccatgattgtgaggcctcctcagccacgtggaactgtgagtccattaaatctctttttctttataaattacccagtctcaagtatgcctttatcagcagcatgaAGATGAGAATGAAAGCAGTGGAGGTCCACTTATTGCACCAGAAATGGTTTTTATTCTATATATTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160735909 279 - 185818997 aataaataagtctcatgaaatctgatggttttataagggtaaaccacttttgtttggctcttattttctctcttgtctgccacatataagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaactgttagtccattaaacctctgtttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTCCAGTTATTGCACCAAAAACAGTTTTTATTCTATATATTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370573 279 - 192294377 aataaataagtctcatgaaatctgatggttttataagggtaaaccacttttgtttggctcttattttctctcttgtctgccacatataagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaactgttagtccattaaacctctgtttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTCCAGTTATTGCACCAAAAACAGTTTTTATTCTATATATTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006607 279 -  30496662 aataaataagtctcatgaaatctgatggttttataagggtaaaccacttttgtttggctcttattttctctcttgtctgccacatataagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaactgttagtccattaaacctctgtttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTTCAGTTATTGCACCAAAAACAGTTTTTATTCTATATATTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519187 279 +  21915920 aataaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttggctcttattttctctcttgtctgccacatataagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaactgttagtccattaaacctctgtttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTCCAGTTATTGCACCAAAAACAGTTTTTATTCTATATATTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020576 279 -  90373283 aataaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttggcccttattttctctcttgtctgccacatgtaagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaactgttagttcattaaacctctctttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTCCAGTTATTGCACCAAAAACGGTTTTTATTCTATATATTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538678 279 +   7543664 aataaataagtctcatgaaatctgatggttttataagggtaaaccacttttgcttggctcttattttctctcttgtctgccacatataagacatgccttttgccttctgccatgattgtgaggcctcctcagccacgtggaactgttagtccattaaacctctgtttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTCCAGTTATTGCACCAAAAACAGTTTTTATTCTATATATTAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5295801 279 -  13750039 aataaataagtcttatgaaatctgatggttttataagggtaaaccacgtttgcttggctcttattttctgtcttgtctgccacatgtaagacgcgccttttgccttctgccatgattgtggggcctcctcagccacatggaactgtgagtccattaaacctctttttccttataaattacccagtctcaagtatgtctttatcagaggcatgaAGATGGGAATGAAAGCAGTGGAGGTCCAGTTATTGCACCAAAAACGGTTTTTATTCTATACATTAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557683 277 +  50472720 aatgaataggtctcatgctatctgatggttttataaggggaaactatttttgcttggttcttattttttctctggtcggtggtatgtaagacatgccttttgccttccaccatgat-gtgaggcttcctcagccacgtggaactgtgagttcattaaacctctttttctttataaattaaccagtctcaagtatgtctttatcagcagcatgaagatggaAATGAAAGCAATGAAAGTCCAATT-TTGCACCAGAAATGGTTTTGATTCTATATATTAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13973900 278 -  14377064 aatgaataggcctcatgctatctgatggttttatagggggaaactatttttgcttggttcttattttgtctctggtctgtggcatgtaagacattccttttgccttccaccatgatcgtgaggcctccttagccacatggagctatgagtccattaaacctctttttctttataaattacgcagtctcaagtatgtctttatcagcagcatgaAGATGGGAATGAAAGCAGTGAAAGTCCAATT-TTGCACCAGAAATGGTTTTTATTCTATATATTAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9196783 278 -   9889416 aatgaataggtctcatgagatctgatggttttataaggggaaactatttttgcttgattcttattttctctctggtctgtggcatgtaagacatgccttctgccttccaccatgattgtgaggccttctcagtcatgtggaactgtgagtccattaaacctctttttctttataaattacccagtctcaagtacgtctttatcagcaacatTAAGATGAGAATGAAAGCAGTGAAAGTCCAATT-TTGCACCAGAAATGGTTTTTATTCTATATATTAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24914622 112 -  38779656 aattagtaaaatatgcaaaatct-----------------------------------------------------------------------------------ctgccATATTTGT------TCCTAA------------------------------------------------------------------------------AGGTAGGTGAGAATGAAAATATTGGAAGTATAAGCATTGGAGCAGAAATACTTTCTATTGCACATATTTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23745020 581 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=296039.000000
s hg38.chr21_GL383579v2_alt    164115 27 +    201197 CAAATTCTAGCAAGATTTTGTAACTTA
s panTro5.chr21               8776285 27 +  33445071 CAAATTCTAGCAAGATTTTGTAACTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315385 27 +  46275980 CAAATTCTAGAAAGATTTTGTAACTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298650 27 -  13858734 CAAATTCTAGCAAGATTTTGTAACTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322345 27 +  32716333 CAAATTCTAGCAAGATTTTGTGACTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160736188 27 - 185818997 CAAATTCTAGAAAGATTTTGTAATTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370852 27 - 192294377 CAAATTCTAGAAAGATTTTGTAATTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006886 27 -  30496662 CAAATTCTAGAAAGATTTTGTAATTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519466 27 +  21915920 CAAATTCTAGAAAGATTTTGTAATTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020855 27 -  90373283 CAAATTCTAGCAAGATTTTGTAATTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538957 27 +   7543664 CAAATTCTAGAAAGATTTTGTAATTTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5296080 27 -  13750039 CAAATTCTAGCAAGATTTTATAATTTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557960 27 +  50472720 CAAATTCTAGCAAGATTTTGTAACGTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974178 26 -  14377064 CAAATTCTAGCAAGATTTTGTAACGT-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197061 27 -   9889416 CAAATTCTAGCAAGATTTTGTAACGTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23745601 27 +  47401472 CAAATTTTAGCAAGATTTTGTAACTTA
i micMur3.chr31             I 581 I 155
s otoGar3.GL873528           24914734 27 -  38779656 CAAATTCTAGCAAGATTTTGTAACTTA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1330397.000000
s hg38.chr21_GL383579v2_alt    164142 152 +    201197 CTATGCTTATATAATTTATATGTAAATATAAGAGGTACTGTCTTTTATGAAAGAAATAA----CTAGAAAATAAAT----TATTTTCAACATAAAC------------------------------------------------------TTTTAGGTTTAATTAATTTTAATAAAGAATGAAAGTATGATTATTTGTATAATATATAATTTTA
s panTro5.chr21               8776312 156 +  33445071 CTATGCTTATATAATTTATATGTAAATATAAGAGGTACTGTCTTTTATGaaagaaataaataactagaaaataaat----TATTTTCAACACAAAC------------------------------------------------------TTTTAGGTTTAATTAATTTTAATAAAGAATGAAAGAGTGATTATTTGTATAATATATAATTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315412 156 +  46275980 CTATGCTTATATAATTTATATGTAAATATAAGAGGTACTGTCTTTTATGaaagaaataaataactagaaaataaat----TATTTTCAACATAAAC------------------------------------------------------GTTTAGGTTTAATTAATTTTAATAAAGAATGAAAGAGTGATTATTTGTATAATATATAATTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298677 156 -  13858734 CTATGCTTATATAATTTATATGTAAATATAAGAGGTACTGTCTTTTACAaaagaaataaataactagaaaataaat----TATTTTCAACATAAAC------------------------------------------------------TTTTAGGTTTAATTAATTTTAATAAAAAATGAAAGTGTGATTATTTGTATAATATATAATTTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322372 156 +  32716333 CTACGCTTATATAATTTATATGTAAATATAAGATGTACTGTCTTTTATAAAAGAAATATATAACTAGAAAATAAAT----TATTTTCAAAATAAAC------------------------------------------------------TTTTAGGTTTAATTAATTTTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160736215 156 - 185818997 CTATGCTTACATAATTTATATGTAAATATAAGATATACTGTCTTTTACAAAAGAAATATATAACATGAAAATAAAT----TATTTTCAAAATGAAC------------------------------------------------------TTTTAGGTTTAGTTAATTTTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167370879 156 - 192294377 CTATGCTTACATAATTTATATGTAAATATAAGATATACTGTCTTTTACAAAAGAAATATATAACATGAAAATAAAT----TATTTTCAAAATGAAC------------------------------------------------------TTTTAGGTTTAGTTAATTTTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5006913 156 -  30496662 CTATGCTTACATAATTTATATGTAAATATAAGATATACTGTCTTTTACAAAAGAAATATATAACATGAAAAGAAAT----TATTTTCAAAATGAAC------------------------------------------------------TTTTAGGTTTAGTTAATTTTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519493 156 +  21915920 CTATGCTTACATAATTTATATGTAAATATAAGATATACTGTCTTTTACAAAAGAAATATATAACATGAAAATAAAT----TATTTTCAAAATGAAC------------------------------------------------------TTTTAGGTTTAGTTAATTTTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20020882 156 -  90373283 CTATGCTTACATAATTTATATGTAAATATAAGATGTACTGTCTTTTACAAAAGAAATATGTAACACGAAGATAAAT----TATTTTCAAAATAAAC------------------------------------------------------TTTTAGATTTAATTAATTGTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3538984 156 +   7543664 CTATGCTTACATAATTTATATGTAAATATAAGATATACTGTCTTTTACAAAAGAAATATATAACATGAAAATAAAT----TATTTTCAAAATGAAC------------------------------------------------------TTTTAGGTTTAGTTAATTTTAATAAAGAATGAAAGTGTGATTATTTGTATAATATATAATTCTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5296107 156 -  13750039 CTATGCTTACATAATTTATATGTAAATATAAGATGTACTGTCTTTTACAAAAGAAATATGTAACACGAAAATAAAT----TATTTTCAAAATGAAC------------------------------------------------------TTTTAGGTTTAATTAATTTTAATAAAGAATGAAAGTGTGATTATTTGCATACTATATAATTCTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26557987 151 +  50472720 CTATGCTGACATAATTTATATGTAAATATAAGATGTATTGTCTCTTACCAAAGAAATATATGACTAAAACATAAAT----TATTTTCAAAATAAAC------------------------------------------------------TTTTAGGT----TTAATTTTAATAAAGAATGAAAGTATGATTA-TTGTAGAATATATAATTTTG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974204 151 -  14377064 CTATGCTTACATAATTTATATGTAAATATAAGATGTATTGTCTCCTACCAAAGAAATATATAACTAAAACATAAAT----TATTTTCAAAATAAAC------------------------------------------------------TTTTAGGT----TTAATTTTAATAAAGAATGAAAGTATGATTA-TTGTATAATATATAATTTTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197088 151 -   9889416 CTATGCTTACATAATTTATATGTAAATATAAGATGTATTGTCTCTTACCAAAGAAATATATAACTAAAACATAAAT----TATTTTCAAAATAAAC------------------------------------------------------TTTTAGGT----TTAATTTTAATAAAGAATGAAAGTATGATTA-TTGTATACTATATAATTTTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24914761 209 -  38779656 ---TACTTACATAATTTATATATAAATACACGATCCATTGACT-TTAAAAAGGAATCATGAAACCAGaaaataaatttaatattttttaaataaaCACTTTTAGTCTGAGTTGAATAGTGGATAAGGCATTGAACTCCTAAAATAAATGTTTCTAGGTAGATTTAATTTTAATAAAATCTG-AAGTACAGTTACTTGTGTAAGAGAGCTTTTTA
i otoGar3.GL873528          C 0 I 2
e micMur3.chr31              23745628 155 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=548537.000000
s hg38.chr21_GL383579v2_alt    164294 54 +    201197 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTAAAATTCGAGCCAACAGA
s panTro5.chr21               8776468 54 +  33445071 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTAAAATTCGAGCCAACAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315568 54 +  46275980 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTAAAATTCGAGCCAACAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298833 54 -  13858734 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTAAAATTCGAGCCAACAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322528 54 +  32716333 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTAAAATTCGAGCCAACAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160736371 54 - 185818997 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTGAAATTTGAGCCTACAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167371035 54 - 192294377 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTGAAATTTGAGCCTACAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5007069 54 -  30496662 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTGAAATTTGAGCCTACAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519649 54 +  21915920 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTGAAATTTGAGCCTACAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20021038 54 -  90373283 TCTTAAAAATATTTTATGTGTACATTTTGATCATTTAAAATTCGAGCCTACAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3539140 54 +   7543664 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTGAAATTTGAACCTACAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5296263 54 -  13750039 TCTTAAAAATAATTTATGTGTACATTTTGATCATTTAAAATTTGAGCCTCTAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558138 53 +  50472720 TCCTTAAAATAAATTAGATATACATTTTGATCATTTAAAATTCAAGTCAA-AGG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974355 53 -  14377064 TCCTAAAAATAAATTAGGCATACATTTTGATCATTT-AATTTCAAGTCAACAGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197239 54 -   9889416 TCTTAAAAATAAATTAGTTATACATTTTGATCATTTAAAATTCGAGTCAACAGG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23745783 54 +  47401472 TCTTACAAATAATTTATAGGTACATTTTGATCATTTAAAATTCAAGTCAACAGA
i micMur3.chr31             I 155 I 80
s otoGar3.GL873528           24914972 54 -  38779656 TCTAAGAAATAATTTATATGTACATTTTGATCATTTAAAATCCAAGTCAACAGA
i otoGar3.GL873528          I 2 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=618048.000000
s hg38.chr21_GL383579v2_alt    164348 80 +    201197 -TATTTATAAAG--CATATCC-TAACATCAATGCTAAAGACTTATTATATGAAAAATATCATCTAACAAATATATA-----AAAGATAC-
s panTro5.chr21               8776522 80 +  33445071 -TATTTATAAAG--CATATCC-AAACATCAATGCTAAAGACTTATTATATGAAAAATATCATCTAACAAACATATA-----AAAGATAC-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315622 80 +  46275980 -TATTTATAAAG--CATATCC-AAACATCAATGCTAAAGACTTATTATATGAAAAATATCATCTAACAAACATATA-----AAAGATAC-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298887 80 -  13858734 -TATTTATAAAG--CATATCC-AAACATCAATGCTAAAGACTTATTATATGAAAAATATCATCTAACAAACATATA-----AAAGATAC-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322582 77 +  32716333 -TATTTATAAAG--CATATCC-AAACATCAATGTTAAAGAC---TTATATGAAAAATATCACCTAACAAACATATA-----AAAGATAC-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160736425 76 - 185818997 -CATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCC-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167371089 76 - 192294377 -CATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCC-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5007123 76 -  30496662 -CATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCC-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519703 76 +  21915920 -CATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCC-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20021092 79 -  90373283 -CATTTATAAAGTCTGTATCC-AAATATCATTGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCC-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3539194 76 +   7543664 -CATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCC-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5296317 76 -  13750039 -CATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGAC---TTATATGAAAAAAATCACCTAACAAATATATA-----AAATATCT-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558191 79 +  50472720 -TATTT-TAAAG--CATATCC-AAATATCAATGCTAAAGGCTTATCATATGACAAATATCACCTAACAAACATGTA-----AAAGATCA-
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974408 79 -  14377064 -TAATT-TAAAG--CATATCC-AAATATCAATGCTAAAGGCTTATTATATGACAAATATCATCTAACAAACATATA-----AAAGATCT-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197293 80 -   9889416 -TATTT-TAAAG--CATATCCAAAATATCAATGCCAAAGGCTTATTATATGACAAACATCACTTAACAAACATATA-----AAAGATCC-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24915026 86 -  38779656 TTTTTT-AAAAA--CATGTTC-AAATATCAGAGCTAAAAACGTGTTATATAAAAAATGTTTCCTCATAAACACATAATAAGAAATGACCT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23745837 80 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=61842.000000
s hg38.chr21_GL383579v2_alt    164428 33 +    201197 AATTGGTTAAATTAATAATTTAAATGAAGTTCT
s panTro5.chr21               8776602 33 +  33445071 AATTGGTTAAATTAATAATTTAAATGAAGTTCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315702 33 +  46275980 AATTGGTTAAATTAATAATTTAAATGAAGTTCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8298967 33 -  13858734 AATTGGTTAAATTAATAATTTAAATGAAGTTCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322659 33 +  32716333 AATTGGTTAAATTAATAATTTAAATGAAGTTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160736501  7 - 185818997 AATTAG--------------------------T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167371165  7 - 192294377 AATTGG--------------------------T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5007199  7 -  30496662 AATTGG--------------------------T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13519779  7 +  21915920 AATTGG--------------------------T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20021171  7 -  90373283 AGTTGG--------------------------T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3539270  7 +   7543664 AATTGG--------------------------T
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5296393  7 -  13750039 AATTGG--------------------------T
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558270 30 +  50472720 AATTGTTTAAATTAATAATTTAAAGAACA---T
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974487 30 -  14377064 AATTTGTTAAATTAATAATTTAAAGGAAG---T
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197373 30 -   9889416 AATTGGTTAAATTAATAATTTAAAGGAAG---T
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23745917 33 +  47401472 AATTGATTAAATTAATAATTCCAATTAAATTCT
i micMur3.chr31             I 80 C 0
s otoGar3.GL873528           24915112 33 -  38779656 AACTAGTTAAATTAGTAATTTAAATTAAATTCA
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e canFam3.chr31              18070382 813 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=2156937.000000
s hg38.chr21_GL383579v2_alt    164461 209 +    201197 TTTGTATTATTCAGTCTCTAGACAGTTTGATTGTATGTAGCAAGCTGCAATAAAATGCTTTAAGAAACAAATTAACATTCTTCAGACAAAGCCCGTACTAAACCTGAACATACCGAATGACTTCTAGATCT-GGG--AAAAGAAAATAATTACTAAATAAACAAAATTGCATTTAACACTAGGGAGCTGCTTTTTGACAAAACTTGTGATAT
s panTro5.chr21               8776635 209 +  33445071 TTTGTATTATTCAGTCTCTAGACAGTTTGATTGTGTGTAGCAAGCTGCAATAAAATGCTTTAAGAAACGAATTAACATTCTTCAGACAAAGCCCGTACTAAACCTGAACATACCGAATGACTTCTAGACCT-GGG--AAAAGAAAATAATTACTAAATAAACAAAATTGCATTTAACACTAGGGAGCTGCTTTTTGACAAAACTTGTGATAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315735 209 +  46275980 TTTGTATTATTCAGTCTCTAGACAGTTTGATTGTGTGTAGCAAGCTGCAATAAAATGCTTTAAGAAACGAATTAACATTCTTCAGACAAAGCCCGTACTAAACCTGAACATACCGAATGACTTCTAGATCT-GGG--AAAAGAAAATAATTACTAAATAAACAAAATTGCATGTAACACTAGGGAGCTGCTTTTTGACAAAACTTGTGATAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299000 209 -  13858734 TTTGTATTATTCAGTCTCTAGACAGTTTGATTGTATGTAGCAAGCTGCAATAAAATGCTTTAAGAAACGAATTAACATTCTTCAGACAAAGCCCGTACCAAACCTGAACATACCGAATGACTTCTAGATCT-GGG--AAAAGAAAATAATTACTAAATAAACAAAATTGCATTTAACGCTAGGGAGCTGCTTTTTGACAAAACTTGTGATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322692 209 +  32716333 TTTGTATTATTAAGTCTGTAGACAGTTTGATTGTATGTAGCAAGCTACAATAAAATACTTTAAGAAAGGAATTAACATTCTTCAGACAAAGCCTATACTAAACCTGAACATACTGAATGACTTCTAGATCT-GGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTAACATTAGGGAGCTGCTTTTTGACAAAACTTGTGATAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160736508 208 - 185818997 TTTGTACTATTCAATCTCTAGACAGTTCGATTGTATGTAGCAAGCTGCAATAGAATACTGTAAGAAACTAATTAACATTCTTTAGACAAAGCCTGTACTAAGTCTGAACATACTGAATGACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGAC-AAACTTGTGATAT
i rheMac8.chr3              C 0 I 441
s macFas5.chr3              167371172 209 - 192294377 TTTGTACTATTCAATCTCTAGACAGTTCGATTGTATGTAGCAAGCTGCAATAGAATACTGTAAGAAACTAATTAACATTCTTTAGACAAAGCCTGTACTAAGTCTGAACATACTGAATGACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGACAAAACTTGTGATAT
i macFas5.chr3              C 0 I 441
s macNem1.NW_012015021v1      5007206 209 -  30496662 TTTGTACTATTCAATCTCTAGACAGTTCGATTGTATGTAGCAAGCTGCAATAGAATACTGTAAGAAACTAATTAACATTCTTTAGACAAAGCCTGTACTAAGTCTGAACATACTGAATGACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGACAAAACTTGTGATAT
i macNem1.NW_012015021v1    C 0 I 441
s cerAty1.NW_012002954v1     13519786 209 +  21915920 TTTGTACTATTCAATCTCTAGACAGTTCGATTGTATGTAGCAAGCTGCAATAGAATACTGTAAGAAACTAATTAACATTCTTTAGACAAAGCCTGTACTAAGTCTGAACATACTGAATGACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGACAAAACTTGTGATAT
i cerAty1.NW_012002954v1    C 0 I 445
s chlSab2.chr2               20021178 206 -  90373283 TTTGTATTATTCAATCTCTAGACAGTTTGATTGTATGTAACAAGCTGCAATAGAATACTGTAAGAAACTAATTAACATTCTTTAGACAAAGTCTGTACTAAGTTTGAACA---TGAATAACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGACAAAACTTGTGATAT
i chlSab2.chr2              C 0 I 442
s manLeu1.NW_012103476v1      3539277 209 +   7543664 TTTGTACTATTCAATCTCTAGACAGTTCGATTGTATGTAGCAAGCTGCAATAGAATACTGTAGGAAGCTAATTAACATTCTTTAGACAAAGCCTGTACTAAGTCTGAACATACTGAATGACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAATAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGACAAAACTTGTGATAT
i manLeu1.NW_012103476v1    C 0 I 445
s colAng1.NW_012120598v1      5296400 209 -  13750039 TTTGTATTATTCAATCTCTAGACAGTTTGATTGTATGTAGCAAGCTGCAATAGAATACTGTAAGAAACTAATTAACATTCTTTAGACAAAGCCTGTACTAAGTCTGAACATACTGAATGACTTCTAGATCC-AGG--AAAAGAAAATAATTAGTAAACAAACAAAATTGCATTTATCCCTAGGGAGCAGATTTTTGACAAAACTTGTGATAT
i colAng1.NW_012120598v1    C 0 I 432
s calJac3.chr21              26558300 202 +  50472720 TCTTTATTATTCAGTCTCTAGACATTTTGATTGCATATATCAAGCTGCAGTAAAACACTGTAAGAAACGAATTAACATTCTTCAGACAAAGCC-ATACTAAATCTGATCATACTGAATGACTTTTAGGTCT-GGG--GAAAATA------TTGTAAATAAACAAAATTGAATTTAAAACTGGTTAGCTGCTTTTTGACAAAACTTGTGGTAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974517 203 -  14377064 TCTTTATTATTCAGTCTCTAGACAGTTTGATTGTATATAGGAAGCTGCAATAAAATACTGTAAGAAATGAATTAACATTCTTCAGACAAAGCCTATACTAAAACTGATCATATTGAATGACTTTTAGGTCT-GGG--GAAAAAA------TTGTAAATAAACAAAATTGAATTTAAAACGAGTTAGCTGCTTTTTGACAAAACTTGTGATAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197403 200 -   9889416 TCTTTATTATTCAGTCTCTAGACAGATTGATTGTATATAGCAAGCTGCAATAAAATACTGTAAGAAACTGATTAACATTCTTCAGACAAAGCCTATACTAAATCTGATCATATTGAATGACTTTTAGCTCTAGGG--AAAAAAA------TTGTAAATAAACAAAATTGAATTTAAAAC----TAGCTGCTTTTTGACAAAACTTGTGATAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23745950 207 +  47401472 ATTTTATTATTCATCCTCTAGACAGTTTGATCACTGTTAGCAGGCTTCAACAAAATGCTGTAAGAAACTAATCAATATTCTTCAGACAAAGCCTATCCTAAATCTGAAAACACTGAATGACTTCTGGATTT-GGT----AGAAAAGAAAATCTTAAATCAACAAGATTGCACCTAACACTAGGGAAATACTTTTTGATAAAACCTGTGATAT
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24915145 211 -  38779656 ATTTCATTATGCAGTCTCTAGACAGTTTGATTATTTTTAGCAAGCAGCAACAAATTGCTATAAGAAAATAATTAATATTCTTCAAATAAAACCTATACTAATTCTGAAAACACTGAATGACTTCTGGATTT-AGGGAAAACAAAAGGAAATGTTAAAACAGCAAAATAGCATTCTACACTAGGAAAGTACTATTTGACAGAACTTAGGATAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18071195 204 +  39895921 TTCCTATTATTCCGTCTCTAGACAGTTTGATTATATTTAGCAAGTTGCAATAAAATGTTCTGAGAAACTAATTAATATTC-TCAGACAAAGCCGGTACAAATTCATAACATACTGAGTGGCT--TGGATTT-GAG--AAAAGAGAA-AATATTTAAATCAACAAAACTGCATTTAACACTAGGGAGCTACTTCTTGACAAAACTTGTGACT-
i canFam3.chr31             I 813 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=431087.000000
s hg38.chr21_GL383579v2_alt    164670 39 +    201197 GAAAGTAGCTATTGTTCTCTTAGTCATCAGATGTTTCAG
s panTro5.chr21               8776844 39 +  33445071 GAAAGTAGCTATTGTTCTCTTAGTCATCAGATGTTTCAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315944 39 +  46275980 GAAAGTAGCTATTGTTCTCTTAGTCATCAGATGTTTCAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299209 39 -  13858734 GAAAGTAGCTATTGTTCTCTTAGTCATCAGATGTTTCAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322901 39 +  32716333 GAAAGTAGCTATTGTTCTTTTAGTCATCAGATGTTTCAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737157 39 - 185818997 gaaaGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i rheMac8.chr3              I 441 C 0
s macFas5.chr3              167371822 39 - 192294377 gaaaGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i macFas5.chr3              I 441 C 0
s macNem1.NW_012015021v1      5007856 39 -  30496662 gaaaGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i macNem1.NW_012015021v1    I 441 C 0
s cerAty1.NW_012002954v1     13520440 39 +  21915920 GAAAGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i cerAty1.NW_012002954v1    I 445 C 0
s chlSab2.chr2               20021826 39 -  90373283 gaaAGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i chlSab2.chr2              I 442 C 0
s manLeu1.NW_012103476v1      3539931 39 +   7543664 GAAAGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i manLeu1.NW_012103476v1    I 445 C 0
s colAng1.NW_012120598v1      5297041 39 -  13750039 gaaaGTAGCTTTTGTTCTTTTAGTCATCAAATGTTTCAG
i colAng1.NW_012120598v1    I 432 C 0
s calJac3.chr21              26558502 39 +  50472720 GAAAGCAGCTATTGCTCTTTTAGTCATCAAATATTACAG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974720 39 -  14377064 GAAAGAAGCTATTTTTCTTTTAATCATCAAATACTACAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197603 39 -   9889416 GAAAGAAGCTATTGTTCTTTTAGTCATCAAATGTTCCAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23746157 39 +  47401472 GAAAATAGTTATTGTTCTTTTAGTTATCAAATGTTTCAG
i micMur3.chr31             C 0 I 51
s otoGar3.GL873528           24915356 38 -  38779656 GAAAATAGTCATTGCTCTTTTGGGCATC-AATATTTTAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18071399 31 +  39895921 --------GTATTGTTCTTTTAGTCATCACATGTTTCCT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1063805.000000
s hg38.chr21_GL383579v2_alt    164709 128 +    201197 -TTGTTA--ATATACTTTGATTATGAAA-CTT----AGAGAACATGGACTTTCCATATGACTGTATTCTTC----A-TATATTTTAATAA-CTTCAGTATATTGC-AAAATTTGAAAACTGTATTCTTTATATTTTGTCTAGT
s panTro5.chr21               8776883 128 +  33445071 -TTGTTA--ATATACTTTGATTATGAAA-CTT----AGAGAACATGGACTTTCCATATGACTGTATTCTTC----A-TATATTTTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTGTATTCTTTATATTTTGTCTAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22315983 128 +  46275980 -TTGTTA--ATATACTCTGATTATGAAA-CTT----AGAGATCATGGACTTTCCATATGACTGTATTCTTC----A-TATATTTTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTGTATTCTTTATATTTTGTCTAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299248 127 -  13858734 -TTGTTA--ATATACTTTGATTATGAAA-CTT----AGAGAACATGGACTTTCCATATGACTGTATTCTTC----A-TATATTTTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTGTATTCTTTATATTTTGT-TAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9322940 125 +  32716333 -TTGTTA--ATATACTTTGATTATGAAA-CTT-----------ATGGACTTTCCATATGACTGTATTCTTCAATAA-TATATTTTAATAA-CTTCGATAGATTGC-AAAATTTGAAAACTGTATTCTTTATATTTTGTCTAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737196 125 - 185818997 -TTGTTA----ACACCTTGATTATGAAA-CTT------AGAACATGGACTTGCCATATGACTGTATTCTTC----ACTATATTCTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTATATTCTTTATATTTTGACTAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167371861 125 - 192294377 -TTGTTA----ACACCTTGATTATGAAA-CTT------AGAACATGGACTTGCCATATGACTGTATTCTTC----ACTATATTCTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTATATTCTTTATATTTTGACTAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5007895 125 -  30496662 -TTGTTA----ACACCTTGATTATGAAA-CTT------AGAACATGGACTTGCCATATGACTGTATTCTTC----ACTATATTCTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTATATTCTTTATATTTTGACTAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13520479 125 +  21915920 -TTGTTA----ACACCTTAATTATGAAA-CTT------AGAACATGGACTTGCCATATGACTGTATTCTTC----ACTATATTCTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTATATTCTTTATATTTTGACTAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20021865 125 -  90373283 -TTGTTA----ACACATTGATTATGAAA-CTT------AAAACATGGACTTGCCATATGACTGTATTCTTC----ACTATATTTTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTATGTTCTTTATATTTTGACTAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3539970 125 +   7543664 -TTGTTA----ACACCTTGATTATGAAA-CTT------AGAACATGGACTTGCCATATGACTGTATTCTTC----ACTATATTCTAATAA-CTTCAATAGATTGC-AAAATTTGAAAACTATATTCTTTATATTTTGACTAGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297080 125 -  13750039 -TTGTTA----ACACACTGATTATGAAA-CTT------AAAACATGGACTTGCCACATGACTGTATTCTTC----ACTATATTCTAATAA-CTTCAATAGATTAC-AAAATTTGAAAACTATATTCCTTATATTTTGACTAGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558541 129 +  50472720 -TTGCTATTAAATGTTTTGATTATGAAAGCTT------AGACCACGG-ATTGCCATATGACTGTATTCTTC----ATTATATTTTAATAA-CTTCAAAATACAAC-AAAATCTAAAAACTCTATTCTTTATATTTTGACTAGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974759 127 -  14377064 -TTGTTA--ATATGTTTTGATTATGAAAGCTT------AGAACGTGG-CTTGCCATATGGCTGCATTCTTC----AATATATTTTAATAA-CTTCAAAAAACTGC-AAAATCTAAAAACTCTATTCTTAATATTTTGACCAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197642 126 -   9889416 -TTGTTA--ATATATTTTGATTATGAAAGCTT------AGAACACGG-CTTGTCATATGACTGTATTCTTC----AATATATTTTAATAA-CTTCAATATACTGC-AAAATCT-AAAACTCTATTCTTTATATTTTGACTAGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24915394 131 -  38779656 -TGTTTA--ATATTCTATGATATTTAAC-ATTCAGAACAGAATAGTGACTTGTTACGTGGTTATATTCTTT----CCTGTGCTTTG--AG-TCTTAATATACTGG-AAAATCTGAAAATTATATTCTTAATATTATGACTAGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18071430 131 +  39895921 TTTCTTA--ATGGGCTTTGATTTTTAAAGCTT------AGCACACTGACTTGCCATATGGCTGTATTCTTT----GATATATCTTAATGGTTTTTAATAAATCACAAAAATCTGAAAATTGTATTCCTGATATTTTGACTACT
i canFam3.chr31             C 0 I 195
e micMur3.chr31              23746196  51 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=1675734.000000
s hg38.chr21_GL383579v2_alt    164837 173 +    201197 GAAGAAGAAAGACCTAAGTTTTATT---TACTGGTATATATTCAATCCAATAATATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCTATTTTTTGGGCTGGCTGCATTCCTATAGAGTCAACTTATTAGGTATGAATCACT---------------ATTTATATTCA
s panTro5.chr21               8777011 173 +  33445071 GAAGAAGAAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAATATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCTATTTTTTGGGCTGGCTGCATTCCTATAGAGTCAACTTATTAGGTATGAATCACT---------------ATTTATATTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316111 173 +  46275980 GAAGAAGAAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAATATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCTATTTTTTGGGCTGGCTGCATTCCTATAGAGTCAACTTATTAGGTATGAATCACT---------------ATTTATATTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299375 173 -  13858734 GAAGAAGAAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAATATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCTTTTTTTTGGGCTGGCTGCATTCCTATAGAGTCAACTTATTAGGTATGAATCACT---------------ATTTATATTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323065 173 +  32716333 GAAGAAGAAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAATATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCTGTTCTTTGGGCTGGCTGCATTCCTACAGAGTCAACTTATTAGGTACGAATCTCT---------------ATTTATATTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737321 173 - 185818997 GAAAAAGGAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAACAATTTACTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCATT---------------ATTTATATTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167371986 173 - 192294377 GAAAAAGGAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAACAATTTACTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCATT---------------ATTTATATTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008020 173 -  30496662 GAAAAAGGAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAACAATTTACTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCATT---------------ATTTATATTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13520604 173 +  21915920 GAAAAAGGAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTATTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCATT---------------ATTTATATTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20021990 173 -  90373283 GAAGAAGAAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCATT---------------ATTTATATTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3540095 173 +   7543664 GAAAAAGGAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCATT---------------ATTTATATTCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297205 173 -  13750039 GAAGAAGAAAGACATAAGTTTTATT---TACTGGTATATATTCAATCCAATAACATGTCATGTCAGTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATGATAATTCTATTCTTTGAGCTGGCTACATTCCTATAGATTCAATTTATTAGGTATGAATCTTT---------------ATTTATATTCA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558670 167 +  50472720 GAAGAAGAAAGACataaattttattttatttatttatatattCAATCCAATA--ATGTCATAT--GTTAATATCT-GTATGTAAATAATTTACTTTCT---TAATAATAATTCTACTCTTTG----GGCTTCGTTCCTATAGATTCAACTTATTAGGCATAAGTCACT---------------ATTTATATTCA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13974886 164 -  14377064 GAAGAAGAAAGACATAAGTTTTATT---TATGGGTATATATTCAATCCAATA--ATGTCATAT--GTTAATGTCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCCATTCTTT-----GGCTTCGTTCCTATAGATTCAACTTTTTAGTCATAAGTCACT---------------ATTTATATTCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197768 165 -   9889416 GAAGAAGAAAGACATAAGTTTTATT---TATGGGTATATATTCAATCCAATA--ATGTCATAT--GTTAATATCTGGTATGTAAATAATTTACTTTCT---TAATAATAATTCTATTCTTTG----GGCTTCGTTCCTATAGATTCAACTTTTTAGGCATAAATCACT---------------ATTTATATTCA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24915525 186 -  38779656 GAATAAGAAAGACACAAGTTTCACT---TACTGATATATAGTCACTATAATAATGTGTTATGCCGATTGATGTATGAGATGTAAATAACTTATGTATT-AGCAGTAATGATTCTATTCTTTG----GTTGGTATTCCTACAGATTCAACttattttttttaatttattaatagtttatttatCACTCATATTCA
i otoGar3.GL873528          C 0 I 373
s canFam3.chr31              18071756 173 +  39895921 aaaaGAGAAAGACATATATTTTGTT---TAGTTATATATATTCAATCTAACAATATGTTATGCCAGTTAATCTCTGATATGTAAATTATTTATTTTCTTAGTAATAATAATTGCATCCTTTTG---TACTGCATCCCTATATATTCAATTTATTTACTATGAATTCCT---------------ATTAATATCCA
i canFam3.chr31             I 195 C 0
e micMur3.chr31              23746196  51 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=809743.000000
s hg38.chr21_GL383579v2_alt    165010 102 +    201197 ACAGGATTTT-TAAATGTGTTAAATAAAATTTAAAATAACTGATGGATATAACCATAAGCATGCCATTTGA---------AATTTTTTGCCTTTTAATGAGTGCCCAATACT
s panTro5.chr21               8777184 102 +  33445071 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAA-TCACTGATGGATATAACCATAAGCATGCCATTTGA---------ACTTTTTTGCCTTTTAATGAGTGCCCAATACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316284 102 +  46275980 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAA-TCACTGATGGATATAACCATAAGCATGCCATTTGA---------ACTTTTTTGCCTTTTAATGAGTGCCCAATACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299548 102 -  13858734 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAA-TCACTGATGGATATAACCATAAGCATGCCATTTGA---------ACTTTTTTGCCTTTTAATGAGTGCCCAATACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323238 103 +  32716333 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAACCATAAGCATGCCATTTGA---------ACTTTTTTGCCTTGTAATGAGTGCCTAATACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737494 103 - 185818997 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAACCATAAGCAAGCCATTTGA---------ACTTTTTTACCTTTTAATGAGTGCACAATACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167372159 103 - 192294377 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAACCATAAGCAAGCCATTTGA---------ACTTTTTTACCTTTTAATGAGTGCACAATACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008193 103 -  30496662 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAACCATAAGCACGCCATTTGA---------ACTTTTTTACCTTTTAATGAGTGCACAATACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13520777 103 +  21915920 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAAACATAAGCACGCCATTTGA---------ACTTTTTTACCTTTTAATGAGTGCACAATACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20022163 103 -  90373283 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAACCATAAGCATGCCATTTGA---------ACTTTTTTGCCTTTTAATGAGTGCACAATACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3540268 103 +   7543664 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGATGGATATAAACATAAGCACGCCATTTGA---------ACTTTTTTACCTTTTAATGAGTGCACAATACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297378 103 -  13750039 ACAGGATTTTATAAATGTGTTAAATAAAATTTAAAATCACTGACGGATATAACCATAAGCATGCCATTTGA---------ACTTTTTTGCCTTTTAATGAGTGCACAGTACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558837  93 +  50472720 ACAAGA-TTTATAAATGTGTTAAA------------TCACAGATGGATATAACCATAAACATGCTATTTGACTG------TTTTTTTGGCCTATTAATGAGTGCAGAATACT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13975050  99 -  14377064 GCAAGA-TTTATAAACATGTTAAA------------TCACAGATGGATATAACCATAAACATGCTACTTGACTGTTTTTTTTTTTTTTGACTCTTAATAAGTGCAGGATACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9197933  98 -   9889416 ACAAGA-TTTATAAACTTGTTAAA------------TCACAGATGGATATAACCATAAACATGCTATTTGACTG-TTTTTTTTTTTTTGCCTCTTAATAAGTGCAGAATACT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18071929 100 +  39895921 ATGCAGTTGCATAAATGTATTAACTAAAATTTAAG-TCACTGCTGGGTATGAG-ATAAACATACTATTTTA----------CTATTTTATCTCTTAAGGAGTGTACAATACA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746196  51 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24915711 373 -  38779656 I

a score=2393929.000000
s hg38.chr21_GL383579v2_alt    165112 261 +    201197 -----AAATTATTCGCCAGATATTCTT--AAGTTTAGATT-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--GGGAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAATCTTTAGTACTAATACCATTAATTTCTTAAATGTCAGTTAACACCTGCATGATATACC-TTTTTTAAAGAAGACAGTG-ACTGTT--GTGAATAATTTTCATGCATCAATC----AAATTACATTTCCTGAGTTGCATGT--GTCTTATTTGAATAAATAATATAGAGC
s panTro5.chr21               8777286 261 +  33445071 -----AAATTATTTGCCAGATATTCTT--AAGTTTAGATT-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--GGGAGC------TGTGATTCATAGACAGATATTTAAGTAACACAATCTTTAGTACTAATACCATTAATTTCTTAAATGTCAGTTAACACCTGCATGATATACC-ATTTTTAAAGAAGACAGTG-ACTGTT--GTGAATAATTTTCATGCATCAATC----AAATTACATTTCCTTAGTTGCATGT--GTCTTATTTGAATAAATAATATAGAGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316386 261 +  46275980 -----AAATTATTTGCCAGATATTCTT--AAGTTTAAATT-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--GGGAGC------TGTGATTCATAGACAGATATTTAAGTAACACAATCTTTAGTACTAATACCATTAATTTCTTAAATGTCAGTTAACACCTGCATGATATACC-TTTTTTAAAGAAGACAGTG-ACTGTT--GTGAATAATTTTCATGCATCAATC----AAATTACATTTCCTTAGTTGCATGT--GTCTTATTTGAATAAATAATATAGAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299650 261 -  13858734 -----AAATTATTTGCCAGATATTCTT--AAGTTTAGATT-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--GGGAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAATCTTTAGTACTAATACCATTAATTTCTTAAATGTCAGTTAACACCTGCATGATATACC-TTTTTTAAAGAAGACAGTG-ACTGTT--GTGAATAATTTTCATGCATCAATC----AAATTACATTTCTTTAGTTGCATGT--GTCTTATTTGAATAAATAATATAGAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323341 262 +  32716333 -----AAATTATTTGCCAGATATTCTT--AAGTTTAGATT-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAATCTTTAGTACTAATACCATTAATTTCTTAATTGTCAGCTAACACCTGCATGATGTACCTTTTTTTAAAGAAGACAGTG-ACTGTT--GTGAATAATTTTCATGCATCAATC----AAATTACATTTCCTTAGTTGCATGT--GTCTTATTTGAATAAATAATATGGAGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737597 261 - 185818997 -----AAGTTATTCACCAGATATCATT--AAGTTTAGATT-----------TGTAAGATTAATAA---------GAAATGA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAGTCTTTAGTACCAATACCACTAATTTCTTAATTGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATATT--GCCAATAATTTTCATGCATCAATC----AAGTTACATTTCCTTTGTTGCATGT--GTCTTATTTGGATAAATAATATGGAGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167372262 261 - 192294377 -----AAGTTATTCACCAGATATCATT--AAGTTTAGATT-----------TGTAAGATTAATAA---------GAAATGA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAGTCTTTAGTACCAATACCACTAATTTCTTAATTGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATATT--GCCAATAATTTTCATGCATCAATC----AAGTTACATTTCCTTTGTTGCATGT--GTCTTATTTGGATAAATAATATGGAGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008296 261 -  30496662 -----AAGTTATTCACCAGATATCATT--AAGTTTAGATT-----------TGTAAGATTAATAA---------GAAATGA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAGTCTTTAGTACCAATACCACTAATTTCTTAATTGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATATT--GCCAATAATTTTCATGCATCAATC----AAGTTACATTTCCTTTGTTGCATGT--GTCTTATTTGGATAAATAATATGGAGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13520880 261 +  21915920 -----AAGTTATTCACCAGATATCATT--AAGTTTAGATT-----------TGTAAGATTAATAA---------GAAATGA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAGTCTTTAGTACCAATACCACTAATTTCTTAAATGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATATT--GTCAATAATTTTCATGCATCAATC----AAGTTACATTTCCTTTGTTGCATGT--GTCTTATTTGGATAAATAATATGGAGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20022266 261 -  90373283 -----AAATTATTCACCAGATATCATT--AAGTTTAGATT-----------TGTAAGATTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATACAAAGATATTTAAATAACACAGTCTTTAGTACCAATACCACTAATTTCTTAATTGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATATT--GTCAATAATTTTCATGCATCAATC----AAATTACATTTCCTTAGTTGCGTGT--GTCTTATTTGGATAAATAATATGGAGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3540371 261 +   7543664 -----AAGTTATTCACCAGATATCATT--ACGTTTAGATT-----------TGTAAGATTAATAA---------GAAATGA------------------------------------TTTA--CCTTT--GGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAGTCTTTAGTACCAATACCACTAATTTCTTAATTGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATATT--GTCAATAATTTTCATGCATCAATC----AAGTTACATTTCCTTTGTTGCATGT--GTCTTATTTGGATAAATAATATGGAGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297481 260 -  13750039 -----AAATTATTCACCAGATATCATT--AAGTTTAGATT-----------TGTAAGCTTAATAA---------GAAATGA------------------------------------TTTA--CCTTT--GGAAGC------TGTGACTCATAGAAAGATATTTAAGTAACACA-TCTTTAGTACCAATACCACTAATTTCTTAATTGTCAGTTAACACCTGCATGGTATAAC-TTTTTTAAAGAAGACAGTG-AATACT--GTCAATAATTTTCATGCATCCATC----AAGTTACATTTCCTTTTAGAAATGT--GTCTTATTTGGATAAATAATATGGAAC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26558930 260 +  50472720 -----AAATTATTTGCCAGATATCCTT--AAGTTTAGATC-----------TGTATGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--AGAAGC------TGTGATTCATAGAAAGATATTTAAGTAATACAATCATTAGCACTAATACAACTAATTTCTTAA-GGTCAGTTAACACCTGCATGATATAAC-ATTTTTAAAGAACACAGAG-AATATG--GTCAATTATTTTCATGCATCAATC----AAATTACATTTCTTTATTTGTATGT--GTCTTATTTGAATAAATACTATGGAGC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13975149 257 -  14377064 -----AAATTATTTGCCATATATCTTT--AAGTTTAGATC-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--TCTTT--AGAAGC------TGTGATTCATAGAAAGATATTTAAGTAATACAATCATTAGCACTAATACAACTAATTTCTTAA-CATCAGTTAACACCTGCATGATATAAC-ATTTTTAAAGAATACAGTA-AATA-----TCAATTATTTTCATGCATCAATC----AAATTACATTTCTTTATTTGTATGT--GTCTTATTTGAATAAATAATATGGAGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9198031 260 -   9889416 -----AAATTATTTGCCAGATATCCTT--AAGTTTAGATC-----------TGTAAGCTTAATAA---------GAAATTA------------------------------------TTTA--CCTTT--AGAAGC------TGTGATTCATAGAAAGATATTTAAGTAACACAATCATTAGCACTAATACAACTAATTTCTTAA-TGTCAGTTAACACTTGCATGATACAAC-TTTTTTAAAGAACAAAGTG-AATATC--GTCAATTATTTTCATGCATCAATC----AAATTACATTTCTTTATTTGTATGT--GTCTTATTTGAATAAATAATATGGAGC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24916084 311 -  38779656 -----AACTTATTAGCTATGGACTTCT--A--TTTATATTCAACATGATTATATAACTGTATTAAATAACATTTAAAATCATTGGTAGTTGTAACTATGAATATGCCATTTAATATTTTTA--CTTTTTAGCAAGTGTACAATGTGACTCATAGAAAGATATTCAAGT------------------TGTGCCATTTATTCCTTAATTTTCAGTTACTACCTTCGTGATATGAC-TTTTTT-AAGAATACAGGGAAATATTCATTCAGTAATTTTTATGCAGTGGTCCTAAAAATCTCATTTCCTTATTTGTGTTT--ATCTTATTTAAATAAATGATAAGGAGG
i otoGar3.GL873528          I 373 C 0
s canFam3.chr31              18072029 261 +  39895921 AAATTTAATTATTT-CCAAATATATTTCAAAGTTTAGGTT-----------TATAAGCTTA-TAA---------GTAGTTA------------------------------------TTTGATTTTTT--TGAAGG------TGTGATTCACAGAG----ATTCATGTCATACAATTACTGGTACTATTACAACTAATTATTTAATTATTAGTTACCACTTGCATGATATAAC--TTTTTAAAGAGCACACTG-AATATTCATTCACTAATTTTCATG------TC----AAAAAACATGTCCTTATTTTTTTCTTGGTCTTATGTAAAAGAATGGTATAGAGC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746196  51 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=505364.000000
s hg38.chr21_GL383579v2_alt    165373 43 +    201197 CCTGGGCCAAACCAGTAGCACAATTATAG--TTTACATATAAACC
s panTro5.chr21               8777547 43 +  33445071 CCTGGGCCAAACCAGTAGCACAATTATAG--TTTACATATAAACC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316647 43 +  46275980 CCTGGGCCAAACCAGTAGCACAATTATAG--TTTACATATAAACC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299911 43 -  13858734 CCTGGGCCAAACCAGTAGCACAATTATAG--TTTACATATAAACC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323603 43 +  32716333 CCTGGTCCGAACCAATAGCACAATTATAA--TTTACATATAAACC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737858 43 - 185818997 CCTGGGTCAAACCAATAACATAATTATAG--TTTACATATAAACC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167372523 43 - 192294377 CCTGGGTCAAACCAATAACATAATTATAG--TTTACATATAAACC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008557 43 -  30496662 CCTGGGTCAAACCAATAACATAATTATAG--TTTACATATAAACC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13521141 43 +  21915920 CCTGGGTCAAACCAATAACATAATTATAG--TTTACATATAAACC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20022527 43 -  90373283 CCTGGGTCAAACCAATAACATAATTATAG--TTTACATATAAACC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3540632 43 +   7543664 CCTGGGTCAAACCAATAACATAATTATAG--TTTACATATAAACC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297741 43 -  13750039 CCTGGGCCAAACCAATAACATAATTATAG--TTTACATATGAACC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26559190 43 +  50472720 CCTGGGCCAAACCAATAGCACAATTATAG--TTTACATAGAAACC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13975406 45 -  14377064 CCTGGGCCAAACCAATAGCACAATTATAGTTTTTACCCAGAAACC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9198291 43 -   9889416 CTTGGGCCAAACCGATAGCACAATTATAG--TTTACACAGAAACC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23746247 43 +  47401472 CCTGGGCCAACCCACTAGCACAATCATAG--TTAACACATAAACC
i micMur3.chr31             I 51 I 46
s otoGar3.GL873528           24916395 43 -  38779656 CCTGGGCCAAACCAATAGTATAATCATAG--TTTACACATAAACC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18072290 43 +  39895921 CTTAGATCAAATCAGTAGCACAAGCATAG--CTTACACACAAACC
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=438168.000000
s hg38.chr21_GL383579v2_alt    165416 49 +    201197 CAAATCTG----TATCCTGTTATATAGTACACACCTTTTTCTCTGGTAGTAAT
s panTro5.chr21               8777590 49 +  33445071 CAAATCTG----TATCCTGTTATATAGGACACACCTTTTTCTCTGGTAGTAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316690 49 +  46275980 CAAATCTG----TATCCTGTTATATAGGACACACCTTTTTCTCTGGTAGTAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8299954 49 -  13858734 CAAATCTG----TATCCTGTTATATAGGACACACCTTTTTCTCTGGTAGTAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323646 49 +  32716333 CAAATCTG----TATCCTGTTATATAGCACACAACTTTTTCTCTGGTAGTAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737901 49 - 185818997 CAAATCTG----TATCCTGTTACATAGTACACACCTTTTTCACTGGTAGCAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167372566 49 - 192294377 CAAATCTG----TATCCTGTTATATAGTACACACCTTTTTCACTGGTAGCAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008600 49 -  30496662 CAAATCTG----TATCCTGTTATATAGTACACACCTTTTTCACTGGTAGCAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13521184 49 +  21915920 CAAATCTG----TATCCTGTTATATAGTACATACCTTTTTCACTGGTAGCAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20022570 49 -  90373283 CAAATCTG----TATCCTGTTATATAGTACACACCTTTTTCACTGGTAGCAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3540675 49 +   7543664 CAAATCTG----TATCCTGTTATATAGTACACACCTTTTTCACTGGTAGCAAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297784 49 -  13750039 CAAATCTG----TATCCTGTTATATAGTACACACCTTTTTCACTGATAATAAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26559233 48 +  50472720 C-AATGTG----TATACCGTTATATTGTACACATCCTTTTCTCTGATAGTAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13975451 48 -  14377064 C-AATGTG----TATCCTGTTATATAGTACACACCTTTTTCTCTGATAGTAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9198334 48 -   9889416 C-AATGTA----TATCCTGTTATATAGTACACACCTTTTTCTCTGGTAGTAAC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24916438 47 -  38779656 TGAATATA----TACCCTG--ACCTAGTCCATTCCATTTTCTCTGATGGTAAC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18072333 42 +  39895921 ----TGTGGACATAGCCTG-------GTGTACATCCTTTTCTCTGATGGTAAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746290 46 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=2651836.000000
s hg38.chr21_GL383579v2_alt    165465 250 +    201197 TGCTAAAATCTGAAAACTAATCCTTCAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAGATGGAAATAGC-ACAATATGGTTCCATCATAGGGCAGTGAATATTGTATA--T--TTGATCTT-Aaaaataa--aataggaaataaaattagaataaTGAGTATTAACAAAAGAAAGCTAAAACTGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGAATTGA
s panTro5.chr21               8777639 250 +  33445071 TGCTAAAATCTAAAAACTAATCCTTCAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAGATGGAAATAGC-ACAATATGGTTCCATCATAAGGCAGTGAATATTGTATA--T--TTGATCTT-Aaaaataa--aataggaaataaaattagaataaTGAGTATTAACAAAAGAAAGCTAAAACTGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGAATTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316739 250 +  46275980 TGCTAAAATCTAAAAACTAATCCTTCAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAGATGGAAATAGC-ACAATATGGTTCCATCATAAGGCAGTGAATATTGTATA--T--TTGATCTT-Aaaaataa--aataggaaataaaattagaataaTGAGTATTAACAAAAGAAAGCTAAAACTGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGAATTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8300003 250 -  13858734 TGCTAAAATCTGAAAACTAATCCTTTAGTTTTCTGCCATTCTCTG---------TGGATAGTCAGATGGAAATAGC-ACAATATGGTTCCATCATAGGGCAGTGAATATTGTATA--T--TTGATCTT-Aaaaataa--aataggaaataaaattagaataaTGAGTATTAACAAAAGAAAGCTAAAACTGAAGCTTC-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGAATTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323695 250 +  32716333 TGCTAAAATCTGGAAACTAATCCTTCAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAGATGGAAATAGC-ACAATATGGTTCTATCATAGGGCAGTGAATATTATATA--T--TTGATCGT-Aaaaataa--aataggaaataaaattagaataaTGAGTATTAACAAAAGAAAGCTAAAACTGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGAATTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160737950 250 - 185818997 TGGTAAAATCTGAAAATTAATCCTTCAGTTTTTTGCCATTCCCTG---------TGGGTAGTCAGATGGAAGTAGC-ACAATATGGCTCCATCATAGGGCAGTGaatattatata--t--ttgatctt-aaaaataa--aatataaaataaaattagaataaTGAGCATTAACACAGGAAAGCTAAAACCGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAG--ATATTAAGATT-------------------------TCCTGAATTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167372615 250 - 192294377 TGGTAAAATCTGAAAATTAATCCTTCAGTTTTTTGCCATTCCCTG---------TGGGTAGTCAGATGGAAGTAGC-ACAATATGGCTCCATCATAGGGCAGTGaatattatata--t--ttgatctt-aaaaataa--aatataaaataaaattagaataaTGAGTATTAACACAGGAAAGCTAAAACCGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAG--ATATTAAGATT-------------------------TCCTGAATTGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008649 250 -  30496662 TGGTAAAATCTGAAAATTAATCCTTCAGTTTTTTGCCATTCCCTG---------TGGGTAGTCAGATGGAAGTAGC-ACAATATGGCTCCATCATAGGGCAGTGaatattatata--t--ttgatctt-aaaaataa--aatacaaaataaaattagaataaTGAGTATTAACACAGGAAAGCTAAAACCGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTACATAAG--ATATTAAGATT-------------------------TCCTGAATTGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13521233 250 +  21915920 TGGTAAAATCTGAAAATTAATCCTTCAGTTTTTTGCCATTCCCTG---------TGGGTAGTCAGATGGAAGTAGC-ACAATATGGCTCCATCATAGGGCAGTGAATGTTATATA--T--TTGATCTT-Aaaaataa--aataggaaataaaattagaataaTGAGTATTAACACAGGAAAGCTAAAACCGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAG--ATATTAAGATT-------------------------TCCTGAATTGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20022619 244 -  90373283 TGGTAAAATCTGAAAATTAATCTTTCACTTTTCTGCCATTCCGTG---------TAGGTAGTCAGATGGAAGTAGC-ACAATATGGCTCCATCATAGGGCAGTGAATATTATATA--T--TTGATCT-------TAA--AATAGGAAATAAAATTAGAATAATGAGTATTAACACAGGAAAGTTAAAACTGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTCCATAAG--ATATTAAGATT-------------------------TCCTGAATTGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3540724 250 +   7543664 TGGTAAAATCTGAAAATTAATCCTTCAGTTTTTTGCCATTCCCTG---------TGGGTAGTCAGATGGAAGTAGC-ACAATATGGCTCCATCATAGGGCAGTGAATATTATATA--T--TTGATCTT-AAAAATAA--AATAGGAAATACAATTAGAATAATGAGTATTAACACAGGAAAGCTAAAACCGAAGCTTT-GCAAAAACTGA----------TAAA-TGGAAGTACCTCTGGCAATACCATTCCATAAG--ATATTAAGATT-------------------------TCCTGAATTGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5297833 250 -  13750039 TGGTAAAATCTGAAAGTTAATCCTTCAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAAATGGAAGTAGC-ACAATATGGTTCCATCATAGGGCAGTGAATATTATATA--T--TTGATCTT-AAAAATAA--AATCGGAAATAAAATTAGAATAATGAGTATTAACACAGGAAAGCTAAAACTGAAGCTTT-GCAAAAACTGA----------TAAA-TGAAAGTACCTCTGGCAATACCATTGCATAAA--ATATTAAGATT-------------------------TCCTGAACTGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26559281 250 +  50472720 TGCTAAAATCTGAAAACTAATCCTTTAGTTTTCTGCCATTCTCTG---------TGGGCAATCAGATGAAAATACC-ACAAAATGGCTTCATCATAGGGCAGTGAATATTATATA--T--TTGATCTT-AAAAATAA--AATAGGAAATCAAGTTACAATAATGAGTATTAACACAGGAAAGCTAAAACTGAAGCTTT-GGGAAAACCGA----------TTAA-TGAACGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGAACTGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13975499 250 -  14377064 TGTTAAAATCTGAAAACGAATCCTTTAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAGATGGAAACACC-ACAAAATGGTTCCATCAGAGGGCAGTGaatattatata--t--ttgatctt-aaaaataa--aataggaaatCAAATCACAATAATGAGTATTAACATAGGAAAGCTAAAACTGAAGTTTT-GGGAAAACTGA----------TTAA-TAAAAGTACCTCTGGCAATACCATTCCATAAA--ACATTAAGATT-------------------------TCCTTAACTGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9198382 250 -   9889416 TGCTAAAATCTGAAAACTAATCCTTTAGTTTTCTGCCATTCTCTG---------TGGGTAGTCAGATGGAAATACC-ACAAAATGGCTCCATCATAGGGCAGTGaatattatata--t--ttgatctt-aaaaataa--aataggaaatCAAATCACAATAATGAGTATTAACACAGGAAAGCTAAAACTGAAGCTTT-GGGAAAACTGA----------TTAA-TGAAAGTACCTCTGGCAATACCATTCCATAAA--ATATTAAGATT-------------------------TCCTGGACTGA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23746336 256 +  47401472 TGCTAAAATCTGAAAAATAATTCTTCAGGTTTCAGTCATTCTCTG---------TGAGTAGTCAGATGGAAATGGA-GACAATAGGTTCCATCACAAGGCATTAAATATTTTATA--CATTTTATCTTAaaaaataa--aataaaagataaaaatagaataaTGAGTGTTAACAAAGCAAAGCTAAAAATGAAACTTT-GTAAAGACTGG----------TAAAATAGAAGAACCTCTGACAACACCATGCCAAGAAAAATATTAAGATT-------------------------TTCTGAACTGA
i micMur3.chr31             I 46 I 4855
s otoGar3.GL873528           24916485 246 -  38779656 TACTAAAATCT-----------------------GCCACTCTCTGACTACTGTCTGAGTAGTCAGATGAACATGGA-GGGAATAGACTCTACCACAAGGCAGCAAATATTGTATA--CA-TTTACCTt-aaagataa--aataggaaataaaagtagaactataaatgttaagaaagcaaaactaaaagtaaagcttt-acaaaaattgaaagtgaaatttaaagtgaaaGAACCTCTGGTATCATCATGCCAAATA----CTTgagatt-------------------------ctctgaagtga
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18072375 280 +  39895921 TGCTAAGCACTGAAAAATGATCCTTCAGATTTCTGTCACTTTCTA---------TGGATGGCAAAATTTAAAAAGAGGGAATGCGGTTGCATTGCCAGGCAGTGATTTCTATATACTT--TTTGTCTT-AAAAGTAAGCAATAGAAAGTAAAAGTAAAACAATGAGAGTTAACAAAGCAAAGATACAATTGAAGCTTTGGTAAAAACCAA----------CAGA-ATGAAAAACCTCTCGCAACCCCATGCTGGaaa--a-aaaaaggttaaaaagaaagaaaaggaaaaaaaaaaTCTGAACTAA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=10047567.000000
s hg38.chr21_GL383579v2_alt    165715 1098 +    201197  
s panTro5.chr21               8777889 1098 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22316989 1098 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8300253 1096 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9323945 1095 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160738200 1101 - 185818997  
i rheMac8.chr3              C 0 I 23
s macFas5.chr3              167372865 1092 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5008899 1100 -  30496662  
i macNem1.NW_012015021v1    C 0 I 23
s cerAty1.NW_012002954v1     13521483 1098 +  21915920  
i cerAty1.NW_012002954v1    C 0 I 23
s chlSab2.chr2               20022863 1100 -  90373283  
i chlSab2.chr2              C 0 I 23
s manLeu1.NW_012103476v1      3540974 1100 +   7543664  
i manLeu1.NW_012103476v1    C 0 I 23
s colAng1.NW_012120598v1      5298083 1100 -  13750039  
i colAng1.NW_012120598v1    C 0 I 23
s calJac3.chr21              26559531 1099 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13975749 1099 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9198632 1095 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24916731 1172 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18072655 1087 +  39895921  
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e saiBol1.JH378168            8727215  326 +  13128814 I

a score=52840.000000
s hg38.chr21_GL383579v2_alt    166813 27 +    201197 gtaaattagaataaactctgtggatta
s panTro5.chr21               8778987 16 +  33445071 ---------aataaact--gtggatta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318087 16 +  46275980 ---------aagaaact--gtggatta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301349 18 -  13858734 ---------aagaaactctgtggatta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325040 16 +  32716333 ---------agtaaact--gtggatca
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167373957 27 - 192294377 gtaaattagaatcaactctgtggattA
i macFas5.chr3              C 0 I 2
s calJac3.chr21              26560630 27 +  50472720 gtgaattagaataaactctgtggatta
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13976848 27 -  14377064 gtggattagaataaactctgtggatta
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9199727 27 -   9889416 gtgaattagaataaactctgtggatta
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24917903 27 -  38779656 tgaaatttaaataaactctgtggagta
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18073742 23 +  39895921 --acaactgaaaatact--ggggattg
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=696646.000000
s hg38.chr21_GL383579v2_alt    166840 271 +    201197 tgcatatgtcagtgtattggttttgctggtgcactatagttatgcaagatgttactactaggagaatccaagtgaaggata---------catgaaacgtctttatatatatatatatttttt-------gaaattttcaatgaattgat---tatttcaaaataaTATTTTAGAAATATGGTAGGCTAAATTTTTAAAAATACTA-TTTTTGGAAATAGTAATAAAGTGTGCTTTCCA-----------GGAAAAGTATAACAGTCATGGACAATGGGAATAATTCAGAACCAGTCCAAGA
s panTro5.chr21               8779003 278 +  33445071 tgcatatgtcagtttattggttttgctggtgcactatagttatgcaagatgttactactaggagaatccaagtgaaggata---------catgaaacttctttatatatatatatatttttttttttttgaaattttcaatgaattgat---tatttcaaaataaaattttagaaaTATGGTAGGCCAAATTTTTAAAAATACTA-TTTTTGGAAATAGTAATAAAGTGTGCTTTCCA-----------GGAAAAGTATAACAGTCATGGACAATGGGAATAATTCAGAACCAGTCCAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318103 272 +  46275980 tgcatatgtcagtttattggttttgctggtgcactatagttatgcaagatgttactactaggagaatccaagtgaaggata---------catgaaacttctttatatatatatatatatatt------tgaaattttcaatgaattgat---tatttcaaaataaaaTTTTAAAAATATGGTAGGCTAAATTTTTAAAAATACTA-TTTTTGGAAATAGTAATAAAGTGTGCTTTCCA-----------GGAAAAGCATAACAGTCATGGACAATGGGAATAATTCAGAACCAGTCCAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301367 271 -  13858734 tgcatgtgtcagtttattggttttgctggtgcactatagttatgcaagatgttactactaggagaatccaagtgaa-gata---------catgaaacttctttatatttatatatatatttt------tgaaattttcaatgaattgat---tatttcaaaataaaaTTTTAGAAATATGGTAGGCTAAATTTTTAAAAATACTA-TTTTTGGAAATAGTAATAAAGTGTGCTTTCCA-----------GGAAAAGTATAACAGTCATGGACAATGGGAATAATTCAGAACCAGTCCAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325056 269 +  32716333 tgaatatgtcagtttattggttttgctggtgcactatagttatgcaagatgttactactaggagaatccaagtgaagggta---------cgtgaaacctctttatatatatatatatat---------agaaattttcaatgaatttat---tatttcaaaataaaaTTTTAGAAATATGGTAGGCTAAATTTTTAAAAATACTA-TTTTTGGAAATAGTAATAAAGTGTGTTTTCCA-----------GGAAAAGCATAACAGTCATGGACGATGGGAATAATTCAGAACCAGTCCAAGA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26560657 268 +  50472720 tgcatacattagtttattggttttgctggtgcactacacttacgcaagatgttaccactagaagaagccaagcgaagggta---------tatgaaacccctttatatatat-------tttt------tgaaattttcaatgaattgatgagtatttcaaaatgaaatgttATAAATATGGTAGAATAAATTTTTAAAAATACAA-TTTTTTCAACTGGTAATAAAGTATGGTTTCCA-----------GGAAAAGCATAACAGACATGGATGATGGGGATAAATAAGAACCAGCCCAAGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13976875 266 -  14377064 tgcatacattagtttattggttttgctggtgcactacacttatgcaaggtgttaccactgggagaagccaagtgaagggta---------tatgagacccctttatatatat-------tttt------tgaaattttcaatgaattgatgagtatctcaaaatacaaTTTTATAAATACGGTAGACTAAATTTTTAAAAATGCAA---TTTTCAGATGGTAATAAAGTATGGTTTCCA-----------GGAAAAGCATAACAGACATGGATGATGGAAATAAATAAGAACCAGCCCAAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9199754 268 -   9889416 tgcatacattagtttattggttttgctggtgcactacacttatgcaagatgttaccactgggagaagccaagtgaagggta---------tatgaaacccctgcatatatat-------tttt------tgaaattttcaatgaattgatttgtgtttcaaaataaaatgttATAAATATGGTAGACTAAATTTTTAAAAATGCAA-TTTTTTCAAATGGTAACAAAGTATGGTTTCCA-----------GGAAAAGCATAACAGACATGGATGATAGGAATAAATAAGAACCAGCCCAAGA
i aotNan1.NW_018487195v1    C 0 I 38
s otoGar3.GL873528           24917930 273 -  38779656 tgcatacgacagtttgct-gctttgatagtgtatgatagttatgcaagatattgcaaaggagaaaagccaactaaagtgtgtatgaaagctatgaaatctctttggacaca--------gttt------tgaaacaaccaatgattctataattatttcaaagtaaaaTTTTTCAAATATGTTAGACTAAATAGAAATCAATACAAATTTTTGAAAAATGTAGTGAAGTCT--TTTCCA-----------GAAAAAGCATAACGGaaa-ataaatttaaaaaatttaaGAGTCAGTCCAAAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18073765 284 +  39895921 tgcatatgacaattgactggttttgataatgttctataattgtgtaagatgttacaattgggagaagccaggtaataggtg---------acagaaacctctctgtatct-tctgttt-tctt------ttaaatttcccatgaatatataattattccaaaataaaagtttaaAAATATGGTAGGCTACAGAAAAATCAATACAAGCTTTTGAAAAATGTATCTAAGTATGTTTCCCATAAATTAGAAGGAAAAAGCACAAAAGATATGGAAAA-GTAAAAATTTAAAAACCAATCTCAGA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=58510.000000
s hg38.chr21_GL383579v2_alt    167111 21 +    201197 TGTTCAATAACTGAATAACAA
s panTro5.chr21               8779281 21 +  33445071 TGTTCAATAACTGAATAACAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318375 21 +  46275980 TGTTCAATAACTGAATAACAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301638 21 -  13858734 TGTTCAATAACTGAATAACAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325325 21 +  32716333 TGTTCAATAACTGAATAACAA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26560925 21 +  50472720 TGTTCAATAACTGAATAACAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13977141 21 -  14377064 TGTTCAATAACTGAATAACAA
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24918203 21 -  38779656 GGTTCAATAACTACATTAAAA
i otoGar3.GL873528          C 0 I 707
s canFam3.chr31              18074049 21 +  39895921 GGTTCAATAACTGACTAAAAA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=13088.000000
s hg38.chr21_GL383579v2_alt    167132 8 +    201197 CTAACTCT--
s panTro5.chr21               8779302 8 +  33445071 CTAACTCT--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318396 8 +  46275980 CTAACTCT--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301659 8 -  13858734 CTAACTCT--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325346 8 +  32716333 CTAACTCT--
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26560946 8 +  50472720 CTAACCCT--
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13977162 8 -  14377064 CTAACTCT--
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18074070 8 +  39895921 --GACACTAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24918224 707 -  38779656 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=447802.000000
s hg38.chr21_GL383579v2_alt    167140 224 +    201197 -AATGGCAGAACAAAAAACAAATAGAGAAAGATTATTCTGAGTTAC----------------------------------------------------------------------------------AACTGGCAC-AAT--------------------------------------AGTTTACATTTT---------------CTA--ATC-----------------------AAAAATTACTTTTCATTGC--TCTCCAAAATGAATTTTGAATATAATACATAGTGCCTACTTATAAATGGCTTACTCTC-----AGTGggagtcagcaaatgatggcctgagagccaaatct-tgacaaccacct-gttttGGGAAGTCTGCAAAAAT
s panTro5.chr21               8779310 224 +  33445071 -AATGGCAGAACAAAGAACAAATAGAGAAAGATTATTCTGAGTTAC----------------------------------------------------------------------------------AACTGGCAC-AAT--------------------------------------AGTTTACATTTT---------------CTA--ATC-----------------------AAAAATTACTTTTCATTGC--TCTCCAAAATGAATTTTGAATATAATACATAGTGCCTACTTATAAATGGCTTACTCTC-----AGTGggagtcagcaaatgatggcctgagagccaaatct-tgacaaccacct-gttttGGAAAGTCTGCAAAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318404 224 +  46275980 -AATGGCAGAACAAAGAACAAATAGAGAAAGATTATTCTGAGTTAC----------------------------------------------------------------------------------AACTGGCAC-AAT--------------------------------------AGTTTACATTTT---------------CTA--ATC-----------------------AAAAATTACTTTTCATTGC--TCTCCAAAATGAATTTTGAATATAATACATAGTGCCTACTTATAAATGGCTTACTCTC-----AGTGggagtcagcaaatgatggcctgagagccaaatct-tgacaaccacct-gttttGGGAAGTCTGCAAAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301667 224 -  13858734 -AGTGGCAGAACAAAGAACAAATAGAGAAAGATTATTCTGAGTTAC----------------------------------------------------------------------------------AACTGGCAC-AAT--------------------------------------AGTTTACATTTT---------------CTA--ATC-----------------------AAAAATTACTTTTCATTGC--TCTTCAAAATGAATTTTGAATATAATACATAGTGCCTACTTATAAATGGCTTACTCTC-----AGTGggagtcagcaaatgatggcctgagagccaaatct-tgacaaccacct-gttttGGGAAGTCTGCAAAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325354 222 +  32716333 -AATGGCAGAACAAAGAACAAATAGAG-AATATTATTCTGAGTTAC----------------------------------------------------------------------------------AACTGGTAC-AAT--------------------------------------AGTTTACATTTT---------------CTA--ATC-----------------------AAAAATTACTTTTCATTGC--TCTCCAAAATGAACTTTGAATATAGTACATAGTGCATACTTATAAATGGCTTACTCTC-----AGTGggagtcagcaaatgatggcctgagagccaaatct-tgacaaccacct-gttttgggaagtctg-aaaaat
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26560954 224 +  50472720 -ATTGACAGAGCAAAGAACAAGGAGAGAAAGATTATTCTGAGTCCC----------------------------------------------------------------------------------AGCTGGCAC-AAT--------------------------------------AGTTCACATTTT---------------CTA--ATC-----------------------AAAACCTACTTTTCATTGC--TCTCCAAAATGAATTTTGAACCTAATACATAGCACATACTTATAAATGGCTTACTGTG-----AGTGAAGGTCAGCAAATGACAACCTAAGAGCCATATCT-AGACAACCCCCT-TTTTTGGGAAGTCTGCAAAAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13977170 224 -  14377064 -ATTGACAGAATAAAGGACAAGGAGAGAAAGATTATTCTGAGTCAC----------------------------------------------------------------------------------AGCTGGCAT-GAT--------------------------------------AGTTTACATGTT---------------CTA--ATC-----------------------AAAAACTACTTTTCATTGC--TCTCTAAAATGAATTTTGAATATAATACATAGCACATACTTATAAATGGCTTACTGTG-----AGTGAAGGTCAGCAAATGACAACCTGAGAGCCATATCT-GGACGGCCCCCT-TTTTTGGGAAGTCTGCAAAAAT
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24918931 217 -  38779656 -aACTGGAGGACAAAGAA----AATAAAACAATTATTCTGAGGCAC----------------------------------------------------------------------------------AACCTGCACAAAT--------------------------------------CATTTACATTTT---------------CTAGCAAC-----------------------AAAAACTGTATGTCACTGT--TCTCCGAAATGAATCTTAGACTTACTACATAGTGCACTCCT-------GGTCACTCTC-----AGcaggagtgagaaaatgatgacctgcgggccaaagct-gacccaccgcttatttttgtgcagtctgcaaacat
i otoGar3.GL873528          I 707 C 0
s canFam3.chr31              18074078 391 +  39895921 AATTAGGGGAAAAAAGCAAAAGAAGGAGAAGATTATTCAGAGGCATATTTTCTGATCCCTGAAAGTGTATAtttcaagattttatttatttattcatagagatgcagagggagagaggcagagacagaagcaggcac-catgcagagagcctgacgtgggactcgatccagggtctccaggattacgccctgggctacaggcgatgcta--aaccactgcgccaccggggctgcccGAAAGTGTATATTTCATTTTCACTTTCAAAATGGACTCTGAACTTAATATATAATGAATACCCATAAATGGTTCACTCTCATCTAAGTGGTGGTCAGTAAATGATGGCTTGGTGGCCAAATCTATGCCAATATCTC-TTTTTGTACAGTCTACAAAAAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e aotNan1.NW_018487195v1      9200022  38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=46820.000000
s hg38.chr21_GL383579v2_alt    167364 27 +    201197 T-AAAAAATGC-TTTTAAAAAATAATTTT
s panTro5.chr21               8779534 27 +  33445071 T-AAAAAATGC-TTTTAAAAAATAATTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318628 27 +  46275980 T-AAAAAATGC-TTTTAAAAAATAATTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301891 27 -  13858734 T-AAAAAATGC-TTTTAAAAAATAATTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325576 27 +  32716333 t-aaaaaatgc-ttttaaaaaataaTTTT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26561178 27 +  50472720 TAAAAAAATGC--TTTAAAAAGTAATTTT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13977394 26 -  14377064 T-AAAAAATGC--TTTAAAAAGTAATTTT
i cebCap1.NW_016107322v1    C 0 C 0
s canFam3.chr31              18074469 26 +  39895921 ---GAAAGCACTTTTTCAAAAATAATTTC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919148  0 -  38779656 C
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=314942.000000
s hg38.chr21_GL383579v2_alt    167391 187 +    201197 actgaataaagacaaggtgatgtatatata--caccatggaatactatgcagccattaaaaagaatgaggtcatgtcctttgcagcaacacagatggaactggaggttattatccttagcaaattaatgcaggaacagataaccatatactgaatgttcttgcttacaaatgggagctaagcaatgaga
s panTro5.chr21               8779561 189 +  33445071 actgaataaagacaaggtgatgtatatatatacaccatggaatactatgcagccattaaaaagaatgaggtcatgtcctttgcagcaacacagatggaactggaggttattatccttagcaaattaatgcaggaacagataaccatataccgaatgttcttgcttacaaatgggagctaagcaatgaga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318655 187 +  46275980 actgaataaagacaaggtgatgtatatatg--caccacagaatactatgcagccattaaaaagaatgaggtcatgtcctttgcagcaacacagatggaactggaggttattatccttagcaaattaatgcaggaacagataaccatatactgaatgttcttgcttacaaatgggagctaagcaatgaga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8301918 187 -  13858734 actgaataaagacaaggtgatgtatatata--caccaaggaatactatgcagccattaaaaagaatgaggtcatgtcctttgcagcaacacagatggaactggaggttattatccttagcaaattaatgcaggaacagataaccatatactgaatgttcttgcttacaaatgggagctaagcaatgaga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325603 187 +  32716333 actgaataaagacaatgtggtgtatacaca--caccatggaatactatgcagccattaaaaagaatgagatcatgtcctttgcagcaacacaggtggaactggaggttattatccttagcaaattaatgcaggaacagataaccatatactgaatgttcttgcttacaaatgggagctaagcaatgaga
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26561205 186 +  50472720 actgaataaagaaaatgtggtgtatatata--caccatggaataccatgcagccg-tgaaaagaatgagataatgtcctttgcagcaacacagatgaaattggaggttcctatctttaacaaattattgcaggaacagataaccaaatattacatgttcttacttacaaatgggagctaagggatgaga
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13977420 185 -  14377064 actcaataaagaaaatgtggtgtatatata--caccatggaatattatgcagcca-taaaaagaatgagatcatgtcctttgcaggaacacagatgaaattggaggttactatctttaa-aaattattgcaggaacaggtaaccaaatattgcatgttcttacttacacgtgggagctaaggaatgaga
i cebCap1.NW_016107322v1    C 0 I 502
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e canFam3.chr31              18074495   0 +  39895921 C
e aotNan1.NW_018487195v1      9200022  38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919148   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=85458.000000
s hg38.chr21_GL383579v2_alt    167578 76 +    201197 atacatggtcacaaagaggggtacaacggagactgaggcctacatgaaggtggagtgtgggaggaggggaaggatt
s panTro5.chr21               8779750 76 +  33445071 acacatggtcagaaagagggctacaacggagactgaggcctacatgaaggtggagtgtgggaggaggggaaggatt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318842 76 +  46275980 atacatggtcacaaagaggggtacaatggagactgaggcctacatgaaggtggagtgtgggaggaggggaaggatt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302105 76 -  13858734 atacatggtcacaaagaggggtacaatggagaccgaggcctacatgaaggtggagtgtgggaggaggggaaggatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325790 76 +  32716333 acacatggtcacaaagaggggaacaatggacactgaggcctacatgaaggtgaagtgtgggaggaggggaaggatt
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26561391 68 +  50472720 --------ccacaaaggggggaacaatggacaccgcagcctacttgctggtgtagtgtgggaggaggggggaggtt
i calJac3.chr21             C 0 I 432
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13977605 502 -  14377064 I
e canFam3.chr31              18074495  0 +  39895921 C
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919148  0 -  38779656 C
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=198080.000000
s hg38.chr21_GL383579v2_alt    167654 117 +    201197 aaaaaaatgtccatcagttactatgcttattacctgggtgatgaaataatctgtaccacaa-accccc----atgacacacagtatacctatataacaggcctgtacatataaccctgaacc
s panTro5.chr21               8779826 117 +  33445071 aaaaaaatgtccatcagttactatgcttattacctgggtgatgaaataatctgtactacaa-accccc----atgacacacagtatacctatataacagacctgtacatataaccctgaacc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22318918 117 +  46275980 aaaaaaatgtccatcagttactatgcttattacctgggtgatgaaataatctgtaccacaa-accccc----atgacacacagtatacctatataacaggcctgtacatataaccctgaacc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302181 117 -  13858734 aaaaaaatgtccatgactcactatgcttattacctgggtgatgaaataatctgtaccacaa-accccc----atgacacacagtatacctatataacaggcctgtacatataaccctgaacc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325866 117 +  32716333 aaaaaaatgtccatcagttactatgcttattacctgggtgatgaaataatctgtaccacaa-accccc----atgacacacagtatacctatataacaggcctgaacatataaccctgaacc
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26561891 121 +  50472720 aaaaaaaagtctatcagttactatgcttattacctgggtgataaaataatctgtaccacaa-acacccatgaatggcacacagtatacctgtttaacaagcctatgcatataaccctgaacc
i calJac3.chr21             I 432 C 0
s cebCap1.NW_016107322v1     13978107 122 -  14377064 aaaaaaaagtctattaattactatacttactacctgggtgataaaataatctgcaccagaacccccccatgcatgacacacagtatacctgtttaacaagcctatgcatataaccctgaacc
i cebCap1.NW_016107322v1    I 502 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e canFam3.chr31              18074495   0 +  39895921 C
e aotNan1.NW_018487195v1      9200022  38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919148   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=55284.000000
s hg38.chr21_GL383579v2_alt    167771 29 +    201197 taaagtaaaagttaaaTAATAATAATTTG
s panTro5.chr21               8779943 29 +  33445071 taaagtaaaagttaaaTAATAATAATTTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319035 29 +  46275980 taaagtaaaagttaaaTAATAATAATTTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302298 29 -  13858734 taaagtaaaagttaaaTAATAATAATTTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9325983 29 +  32716333 taaagtgaaagttaaaTAATAATAATTTG
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562012 29 +  50472720 tgacgtaaaagttaaaTAATAATAATTTG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978229 29 -  14377064 tgatataaaagttAAATAATAATAATTTG
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24919148 29 -  38779656 taaaaaaaattttttttaaaaacaatttt
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18074495  0 +  39895921 C
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=799639.000000
s hg38.chr21_GL383579v2_alt    167800 368 +    201197 AAATCATTACATTATAAATGgttatataaatacctacataatatcttcaatttttttatctggttagcaagcctgaaatttttaccatctggccctttaagaaaa-----aaaatctgctaacctctCATCTAGAGGAATCTGAGAAACAGATCTTCTATAGAGATAAGGTTTAGATGATGCCAGAGAGTAACCTAATTATAAAAATTAAAAGTTATGTCAGGTAGGAAACATCTTCTCCATTCCGGAGAGGGACAGCTTTTTTGACATTGGTAAACAAAT----TAAATTGAGAAACATTCAGAAAATTCATTGTAATTTGAAAATCAAATGCATACCA----GCAATAGAATTTAACAAGCCCAGAATATACCCC-GACA
s panTro5.chr21               8779972 368 +  33445071 AAATTATTACATTATAAATGgttatataaatacctacataatatcttcaatttttttatctggttagcaagcctaaaatttttaccatctggccctttaagaaaa-----aaaatctgctaacctctCATCTAGAGGAATCTGAGAAACAGATCTTCTATAGAGATAAGGTTTAGATGATGCCAGAGAGTAACCTAATTATAAAAATTTAAAGTTATGTCAGGTAGGAAACATCTTCTCCATTCCGGAGAGGGACAGCTTTTTTGACATTGGTAAACAAAT----TAAATTGAGAAACATTCAGAAAATTCATTGTAATTTGAAAATTAAATGCATACCA----GCAGTAGAATTTAACAAGCCCAGAATATACCCC-GACa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319064 368 +  46275980 AAATTATTACATTATAAATGgttatataaatacctacataatatcttcaatttttttgtctggttagcaagcctaaaatttttaccatctggccctttaagaaaa-----aaaatctgctaacctctCATCTAGAGGAATCTGAGAAACAGATCTTCTATAGAGATAAGGTTTAGATGATGCCAGAGAGTAACCTAATTATAAAAATTAAAAGTTATGTCAGGTAGGAAACATCTTCTCCATTCCGGAGAGGGACAGCTTTTTTGACATTGGTAAACAAAT----TAAATTGAGAAACATTCAGAAAATTCATTGTAATTTGAAAATTAAATGCATACCA----GCAGTAGAATTTAACAAGCCCAGAATATACCCC-GACa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302327 368 -  13858734 AAATCATTACATTATAAATGgttatataaatacctacataatatcttcaatttttttatctggttagcaagcctaaaatttttaccatctggccctttaagaaaa-----aaaatctgctaacctctCATCTAGAGGAATCTGAGAAACAGATGTTCTATAGAGATAAGGTTTAGATGATGCCAGAGAGTAACCTAATTATAAAAATTAAAAGTTATGTCAGGTAGGAAACATCTTCTCCATTCCGGAGAGGGACAGCTTTTTTGACATTGGTAAACAAAT----TAAATTGACAAACATTCAGAAAATTCATTGTAATTTGAAAATTAAATGCATACCA----GCAGTAGAATTTAACAAGCCCAGAATATACCCC-GACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326012 366 +  32716333 AAATTGTTACATTTTAAATGgttatataaatacctacataatatcttcaatttttttttctagttagcaagcctaaaatttttaccatctggccctttaagaaaa-----gaaatctgctaacctctCATCTAGAGGAATCTGAGAAACAGA---TCTACAGAGATAAGGTTTAGATGATGCCAGAGAGTAACCTAATTATAAAAATTAAAAATCGTGTCAGGTAGGAAACATCTTCTCCATTCCGGAGAGGGACAGCTTTTTTGACATTGGTAAACAAAT----TAAATTGAGAAACATTCAGAAAATTCATTGTAATTTGAAAATTAAATGCATACCA----GCAGTAGAATTTAACAAGCCCAGAATATACCCCTGaca
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562041 363 +  50472720 AAATCATTACATTATAAAttgttacataaatacccaaataatgccttcaa-cattttatctgattagtaagcctaaaatatttatcatctggccctttaaggaaa------aagtttgctaacctctCATCCAGAGGAATCTGAGAAACAGATTTTCTACGGAGAAAAGGTTTAGATGATTCCAGAGAGTAACCTGATTATAAAAACTAAAAGT-GTGTCAGGTAGGAAACATGCTCTTTATTATAGAGACTGACAG-TTTTTTGACATTGGT-AACAAAT----TAAATTGAGAAACATTCAGAAAATTCATTGTAATTTCAACATTAAATGCATATCA----GTAGTACAATTTAACAAACCTGGAATACACCCC-ACCC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978258 363 -  14377064 AAATTGTTATGTCATAAAttgttatataaatacccaagtaatgccttcaa-tattttatctgattagcaagcctaaaatatttaccatctggccctttaaggaaa------aaatctgctaacctctCATCCAGAGGAATCTGAGAAACAGATTTTCTACAGAGAAAAGGTTTAGATGATGCCAGAGAGTAATCTGATTATAAAAATTAAAAGT-GTGTCAGGTAGGAAACATGTTCTCCATTATAGAGACGGATAG-TTTTTTAACATTGGT-AACAAAT----TAAATTGAGAATCATTCAGAAAATTCATTGTAATTTCAACATTAAATGCACACCA----GTAGTACAATTTAacaaacccagaatacactcc-ccca
i cebCap1.NW_016107322v1    C 0 I 48
s otoGar3.GL873528           24919177 347 -  38779656 aaatCACTAGATTATAAATAgttacagaagtgtctacataatgtttcc---cttttcctctgcttaccaagccaaaagcatttactatttggcccttagaggaa-------aaatgtgctgacctctCATGTAGACAAATCTGAAAAATGAATTTTCTATAGTAAGAAGCCTTGGATAAT------GGGTAAATTGATTATCAAAATTAAGAAATGTGTCAGTTTGGAAATGCGTTCTATAATCTAGAAATGGATGGCTTTTTTGACACTGGTTAACAAAT----TTAACTGAGAAACATTCAGAAAATTCATTATAATTTCAGAGTTAAATTTATCCCA----TTAGTAGAA-TTATCAAACAAAGAATGT----------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18074495 357 +  39895921 AAATGCTTATGTTA-AATTGgctatatgagtacctacataaaatcttgattttttcctctgggctaccaagcctaaa-----tactacttggcgttttaaaaaaCCGCTTGTAGAGGGCAAATGGATTTTCTAGAGGAATTGGGAAAATGAATTTTCTACAGAGGTCATGTTTAGATA---CCAAAGAGTAACCTGCTTATCAAAATTGGAAATTACGTCAGGTATAAAATTTGTTCCACGTTACAGAAAGGGACAA-CTCTTTGACATTAATAAACAAATCCTACAAATTAAGAAACATTCATGAAATTCAGTGTAATTTCAAAACTAAATGTGAACCAGTATGTAGTTGAATTTAA----CCCAGAACA-----------
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e aotNan1.NW_018487195v1      9200022  38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=6917.000000
s hg38.chr21_GL383579v2_alt    168168 62 +    201197 CAAaaaaacaaaaacaaaaacaaaaaaaaacccagaagccaa----aaacaaacaaacaaacaaaa
s panTro5.chr21               8780340 57 +  33445071 -----aaacaaaaacaaaaacaaaaacaaaCCCAGAAGCCAA----aaacaaacaaacaaacaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319432 51 +  46275980 -----------aaacaaaaacaaaaacaaacccagaagccaa----aaacaaacaaacaagcaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302695 64 -  13858734 -Aaaaaaacaaaaacaaaaacaaaaacaaa-ccagaagccaaaaacaaacaaacaaacaaacaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326378 55 +  32716333 --aaacaacaacaacaacaacaacaaaaaa-ccaggagccaa--------aaacaaacaaataaaa
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562404 49 +  50472720 ----CCACCCAAACCACACACAAGCAAATATCCAGAGACCAA----AGGCAAACAAA---------
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24919524  5 -  38779656 --------------------CAAAA-----------------------------------------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18074852 10 +  39895921 -------------Ctaaaaataa-------------------------------------------
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13978621 48 -  14377064 I
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=81416.000000
s hg38.chr21_GL383579v2_alt    168230 39 +    201197 aACATGGAGTTTGGTAATTACTTTCATAGAATGAAAAGC
s panTro5.chr21               8780397 39 +  33445071 aacaTGAAGTTTGATAATTACTTTCATGGAATGAAAAGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319483 39 +  46275980 aacaTGAAGTTTGATAATTACTTTCATGGAATGAAAAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302759 39 -  13858734 aacaTGAAGTTTGGTAATTACTTTCATGGAATGAAAAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326433 39 +  32716333 aacaTGAAGTTTGTTAATTACTTTCATGGAATGAAAAGC
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562453 39 +  50472720 ACCATGAAGTTTGATAGTTACTTTCCTGGATGGAAAAGC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978669 38 -  14377064 ACCATGAAGTTTGATAGTTACTTTCCTGGA-ACAAAAGC
i cebCap1.NW_016107322v1    I 48 C 0
s otoGar3.GL873528           24919529 39 -  38779656 AAAATAAAGTTTTGTGATTATTTTCTTGGAATGAAAAGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18074862 28 +  39895921 -----------taattattattttCTCAAATTGGAAAGC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=2548.000000
s hg38.chr21_GL383579v2_alt    168269 1 +    201197 A
s panTro5.chr21               8780436 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319522 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302798 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326472 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562492 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978707 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24919568 1 -  38779656 A
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18074890 0 +  39895921 C
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=262308.000000
s hg38.chr21_GL383579v2_alt    168270 161 +    201197 CAGTGTAggccaggcacggtggctcagtgatacgcctgtaatcccaacgctctgggaggccccgcggagtggattacttgagcccaggagtttgagaccagcctgggccacatggcgagaccccatttctaatt-aaaaagaaaacaaaAAGAGGAAAAGTG
s panTro5.chr21               8780437 161 +  33445071 CAGTGTAggccaggcacggtggctcagtgatacgcctgtaatcccaacgctctgggaggcccagcggagtggattacttgagcccaggagttcgagaccagcctgggccacatggcgagaccccatttctaatt-gaaaagaaaacaaaaAGAGGAAAAGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319523 161 +  46275980 CAGTGTAggccaggcacggtggctcagtgatacgcctgtaatcccaacgctctgggaggcccagcggagtggattacttgagaccaggagttcgagaccagcctgggccacatggcgagaccccatttctaatt-gaaaagaaaacaaaaAGAGGAAAAGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302799 161 -  13858734 CAGTATAggccaggcacggtggctcagtgatacgcctgtaatcccaacgctctgggaggcccagcggagtggattacttgagcccaggagttcgagaccagcctgggccacatggcgagaccccatttctaatt-aaaaagaaaacaaaAAGAGGAAAAGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326473 160 +  32716333 CAGTGTAggccaggcacggtggctcagtgatacgcctgtaatcccaacgctctgggaggcccagctgagtggattacttgagcccaggagtt-gagaccagcctgggccacatggcgagaccctatttctaatt-aaaaagaaaacaaaAAGAAGAAAAGTG
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562493 161 +  50472720 CAGTGTAggccaggcacggtggctctgtgatacttctgtaatcccagcatcctgggagtcccagctgagaggattacttgatcccaagagttggatacaagcctgagcaacacaacgagacccca-ttctaattcaaaaagaaaaTCAAAAGAAGAAAAGCA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978708 162 -  14377064 CAGTGTAggccaggcacagtggctctgtgatacctctgtaatcccagcattctgagaggccaagctgagtggattacttgaacccaagagttcgatacaagcctaagcaacacaaggagtccccatttctaattcaaaaagaaaaTCAAAAGAAGAAAAGCA
i cebCap1.NW_016107322v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e canFam3.chr31              18074890   0 +  39895921 C
e aotNan1.NW_018487195v1      9200022  38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919569   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=2548.000000
s hg38.chr21_GL383579v2_alt    168431 1 +    201197 T
s panTro5.chr21               8780598 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319684 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302960 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326633 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562654 1 +  50472720 T
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978870 1 -  14377064 T
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24919569 1 -  38779656 T
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18074890 0 +  39895921 C
e aotNan1.NW_018487195v1      9200022 38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=522456.000000
s hg38.chr21_GL383579v2_alt    168432 252 +    201197 AGTGTGTAATAGTTCTGAATAACTTCATTCCACATCCACC-CCCACCGAATTGGTTAATATCTATAATTAGTTTGTTTCATGGTGTCAAA-GAAATTTTATATTAACCAAGAAATTCAAGAAGGTCCTCAAAAACCTCTTTTTGAGCATGTTTTAACACACCAAAAATTT---------------TCAAAGGAGAATAATGTGTAATAGTTTATTTTATATAAGCAAAAATATTTTAAA-------------------------------CATGTACTAATTTATTAAAGATAATGTAAA
s panTro5.chr21               8780599 252 +  33445071 AGTGTGTAATAGTTCTGAATAACTTCATTCCACATCCACC-CCCACCGAATTGGTTAATATCTATAATTAGTTTGTTTCATGGTGTCAAA-GAAATTTTATATTAACCAAGAAATTCAAGAAGGTCCTCAAAAACCTCTTTTTGAGCATGTTTTAACACACCAAAAAGTT---------------TCAAAAGAGAATAATGTGTAATAGTTTATTTTATATAAGCAAAAATATTTTAAA-------------------------------CATGTACTAATTTATTAAAGATAATGTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319685 252 +  46275980 AGTGTGTAATAGTTCTGAATAACTTCATTCCACATCCACC-CCCACCAAATTGGTTAATATCTATAATTAGTCTGTTTCATGGTGTCAAA-GAAATTTTATATTAACCAAGAAATTCAAGAAGGTCCTCAAAAACCTCTTTTTGAGCATGTTTTAACACACCAAAAAGTT---------------TCAAAAGAGAATAATGTGTAATAGTTTATTTTATATAAGCAAAAATATTTTAAA-------------------------------CATGTACTAATTTATTAAAGATAATGTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8302961 252 -  13858734 AGTGTGTAATAGTTCTGAATAACTTCATTCCACATCCACC-CCCACCGAATTGGTTAATATCTATAATTAGTTTGTTTCATGGTGTCAAA-GAAATTTTATATTAACCAAGAAATTCAAGAAGGTCCTCAAAAACCTCTTTTTGAGCGTGTTTTAACACACCAAAAAGTT---------------TCAAAAGAGAATAATGTGTAATAGTTTATTTTATATAAGCAGAAATATTTTAAA-------------------------------GATGTACTAATTTATTAAAGATAATGTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326634 249 +  32716333 AGTGTGTAATAGTTCTGAATAACTTCATTCCACATCCATC-CCCACCAAATTGGTTAATATCTATAATTAGTTTGTTTCATGGTGTCAAA-GAAATTTTGTGTTAACCAAGAAATTC---AAGGTCCTCAAACACCTCTTTTTGAGCATGTTTTAACACACCAAAAATCT---------------TCAAAAGAGAATAATGTGTAATAGTTTATTTTATATAAGCAAAAATATTTTAAA-------------------------------CATCTACTAATTTATTAAAGATAATGTAAA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562655 242 +  50472720 AACGTGGAATAATTCCGCATACATTCATTCCACATCCCCGTCTCAACAAATTGGTTAAGATCTATAATTAGTTTGTCTCATGGTGTCAAA-GAAATTTTGTGTGAACCCAAAAATTCAAGAAGATCCTCAAAAATCTC-TTTTAAGCATGTTTTAACACACCAAAGATAT---------------TCAAAAGAGAA-AATGTGTA--AGTTTATTTTATATAAGCAAAAATATTTTAA---------------------------------ATGTACTAATTTATTAAATGTAAA-----
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13978871 262 -  14377064 AGCGTGTAATAATTCTGCATAAGCTCATTCTACATCCCCCTCTCAACAAATTGGTTAAGATCTGTAATTAGTTTGTCTCATGGTGTCAAA-TAAGTTTTGTGTGAACCCAAAAATTCAAGGAGGTCCTCAAAAATCTCTTTTTGAGCATGCTTTAACACACCAAAGATATTTAACACACCATTTCTCAAAAGAGAA-AATGTGTAATAGTTTATTTTATATAAGCAAAAATATTTTAAA-------------------------------CATGTACTAATTTATTAAAGGTAAA-----
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24919570 278 -  38779656 AGTTTATAGTAATTCTGAATAACCCCATTCCACAAAATCT-CCTCAAAAATATGTTAATATCTATACTTAAAATATCTCAGGACCTCAGATGAAATTTGGTTTAAACCAAAAAAATTAAAAGGGTCCTCAAAAACCTCTTTTTGATTATATTTTAGCACATCAAAGACAT---------------CAAAAAGAGAATAATGTACA-TAGTCTTTTT----TAAAAGAAAATATTATAACCATGTTCtaatttatttttttatttttttttCATGTTCTAATTTATTAAAAGCAATTTAA-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18074890 245 +  39895921 AGTATATAATAGTTCAAAGTTACTTAATTCCACA---ATC-TGCATAAAAATGGTTAATGTCTACA-TTAATTTATTTCATTGATTCACA-TTAAATTGGTGTCATCCAAAATATCCCAACGGGTCCTTAGAAACCACTTTTTGAGCACGTTT---AGCATCAAAAACAC---------------CCAAAGGAGAAGAATGTATGTTAGCTTATTTGttataaaataaaatattttaaa-------------------------------CATGCACTAATTTATTGAAGGTGACACAAG
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e aotNan1.NW_018487195v1      9200022  38 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=100002.000000
s hg38.chr21_GL383579v2_alt    168684 38 +    201197 GTACAGAGAGCTAGCACATTCTTTTTGGTCAAATATGT-
s panTro5.chr21               8780851 38 +  33445071 GTACAGAGAGCTAGCACATTCTTTTTGGTCAAATATGT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319937 37 +  46275980 GTACAGAGAGCTAGCACCTTCTTTTTGGTCAAATATG--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303213 38 -  13858734 GTACAGAGAGCTAGCACATTCTTTTTGGTCAAATATGT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326883 38 +  32716333 GTACAGAGAGCTAGCACATTCTTTTTGGTCAAATATGT-
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562897 28 +  50472720 GTACAGAGACCTAGCA---TCTTT-------AATATGT-
i calJac3.chr21             C 0 I 5
s cebCap1.NW_016107322v1     13979133 38 -  14377064 GTACAGAGAGTTAGCATAGTCTTTTTGGTCAAATATGT-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9200060 38 -   9889416 GTACAGAGAGCTAGCATATTCTTTTTGGTCAAATATGT-
i aotNan1.NW_018487195v1    I 38 C 0
s otoGar3.GL873528           24919848 37 -  38779656 GTACATAGAACTAACATATTCTTTTTGGCCAAATATA--
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18075135 39 +  39895921 TTGCGTAGAGCTAACAAATTATTTTCAGTCAAATAAAAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=55952.000000
s hg38.chr21_GL383579v2_alt    168722 29 +    201197 TTTTTCTTAGCATTAATGATATGTAAAA-C
s panTro5.chr21               8780889 29 +  33445071 TTTTTCTTAGCATTAATGATATGTAAAA-C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22319974 29 +  46275980 TTTTTCTTAGCATTAATGATATGTAAAA-C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303251 29 -  13858734 TTTTTCTTAGCATTAATGATATGTAAAA-C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326921 29 +  32716333 TTTTTCTTAGCATTAATGATATGTAAAA-C
i nomLeu3.chr25             C 0 C 0
s cebCap1.NW_016107322v1     13979171 28 -  14377064 TTTTTCTTAGCATCTATAATATGTAAAA--
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9200098 29 -   9889416 TTTTTCTTAGCATCTATAATATGTAAAAA-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24919885 28 -  38779656 TTTTTCTTAGTAT-AATAATATGTCCAG-G
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18075174 29 +  39895921 GATTTCCTAGCATAAATAAAGTGGACAA-A
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e calJac3.chr21              26562925  5 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=132979.000000
s hg38.chr21_GL383579v2_alt    168751 60 +    201197 CAGAACCACAAACAGTAACTAAACACGTTGATATTTTACCAGATGACAGTTTTACTTGTG
s panTro5.chr21               8780918 60 +  33445071 CAGAACCACAAACAGTAACTAAACACGTTGATATTTTACCAGATGACAGTTTTACTTGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320003 60 +  46275980 CAGAACCACAAACAGTAACTAAACACGTTGATATTTTACCAGATGACAGTTTTACTTGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303280 60 -  13858734 CAGAACCACAAACAGTAACTAAACACGTTGATATTTTACCAGATGACAGTTTTACCTGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9326950 60 +  32716333 CAGAATCACAAACAGTAACTAAACACGTTGATATTTTACCAGATGACAGTTTTACTTGTG
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562930 60 +  50472720 CAGAATCACAAATGGTAACTACACACATTGATATTTTACCAGATGACAGTTTTATTTGTG
i calJac3.chr21             I 5 C 0
s aotNan1.NW_018487195v1      9200127 60 -   9889416 CAGAATCACAAATAGTAACTACACACATTGATATTTTACCAGATGACAGTTTTACTTGTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24919913 49 -  38779656 TAGAATTAGAAA--GCAGTTAAACATTTTGATATTTT---AGATGA------GACTTGTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18075203 60 +  39895921 TGAGCTTGCAGACAGCAACTAACTACCAAGGTATTTTAGCAGGTGGTACTTGGGCTTGTG
i canFam3.chr31             C 0 I 9
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13979199  0 -  14377064 C
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=1694.000000
s hg38.chr21_GL383579v2_alt    168811 1 +    201197 T
s panTro5.chr21               8780978 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320063 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303340 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327010 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562990 1 +  50472720 T
i calJac3.chr21             C 0 I 7
s aotNan1.NW_018487195v1      9200187 1 -   9889416 T
i aotNan1.NW_018487195v1    C 0 T 67
s otoGar3.GL873528           24919962 1 -  38779656 C
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13979199 0 -  14377064 C
e canFam3.chr31              18075263 9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=2548.000000
s hg38.chr21_GL383579v2_alt    168812 1 +    201197 T
s panTro5.chr21               8780979 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320064 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303341 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327011 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562998 1 +  50472720 T
i calJac3.chr21             I 7 T 74
s aotNan1.NW_018487195v1      9200121 1 -   9889416 T
i aotNan1.NW_018487195v1    T 67 C 0
s otoGar3.GL873528           24919963 1 -  38779656 T
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13979199 0 -  14377064 C
e canFam3.chr31              18075263 9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=61435.000000
s hg38.chr21_GL383579v2_alt    168813 28 +    201197 AAAAACAGAATCATAAACAGTAACTAAA
s panTro5.chr21               8780980 28 +  33445071 AAAAACAGAATCACAAACAGTAACTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320065 28 +  46275980 AAAAACAGAATCACAAACAGTAACTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303342 28 -  13858734 AAAAACAGAATCACAAACAGTAACTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327012 28 +  32716333 AAAAACAGAATCACAAACAGTAACTAAA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562925 28 +  50472720 AAATACAGAATCACAAATGGTAACTACA
i calJac3.chr21             T 74 C 0
s cebCap1.NW_016107322v1     13979199 24 -  14377064 ----ACAGAATCACAAACGGTAACTACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9200122 28 -   9889416 AAAAACAGAATCACAAATAGTAACTACA
i aotNan1.NW_018487195v1    C 0 I 38
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18075263  9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919964  0 -  38779656 C
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=8148.000000
s hg38.chr21_GL383579v2_alt    168841 3 +    201197 CAC
s panTro5.chr21               8781008 3 +  33445071 CAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320093 3 +  46275980 CAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303370 3 -  13858734 CAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327040 3 +  32716333 CAC
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562953 3 +  50472720 CAC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979223 3 -  14377064 CAC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9200188 3 -   9889416 CAC
i aotNan1.NW_018487195v1    I 38 T 38
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18075263 9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919964 0 -  38779656 C
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=83351.000000
s hg38.chr21_GL383579v2_alt    168844 35 +    201197 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
s panTro5.chr21               8781011 35 +  33445071 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320096 35 +  46275980 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303373 35 -  13858734 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327043 35 +  32716333 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562956 35 +  50472720 ATTGATATTTTACCAGATGACAGTTTTATTTGTGT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979226 35 -  14377064 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9200153 35 -   9889416 ATTGATATTTTACCAGATGACAGTTTTACTTGTGT
i aotNan1.NW_018487195v1    T 38 I 3
s otoGar3.GL873528           24919964  6 -  38779656 -------TTTTAA----------------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18075263  9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=3141.000000
s hg38.chr21_GL383579v2_alt    168879 3 +    201197 taa
s panTro5.chr21               8781046 3 +  33445071 Taa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320131 3 +  46275980 taa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303408 3 -  13858734 Taa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327078 3 +  32716333 Taa
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562991 3 +  50472720 CAC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979261 3 -  14377064 CAC
i cebCap1.NW_016107322v1    C 0 C 0
s otoGar3.GL873528           24919970 3 -  38779656 TAC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18075263 9 +  39895921 I
e aotNan1.NW_018487195v1      9200188 3 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=30396.000000
s hg38.chr21_GL383579v2_alt    168882 10 +    201197 acattaaaaa
s panTro5.chr21               8781049 10 +  33445071 acattaaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320134 10 +  46275980 acattaaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303411 10 -  13858734 acattaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327081 10 +  32716333 acattaaaaa
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26562994 10 +  50472720 ACATTAAAAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979264 10 -  14377064 ACattaacaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9200191 10 -   9889416 ACATTAAAAA
i aotNan1.NW_018487195v1    I 3 C 0
s otoGar3.GL873528           24919973 10 -  38779656 ATATTAAAAA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18075263  9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=287155.000000
s hg38.chr21_GL383579v2_alt    168892 127 +    201197 tggaaataggctgggtgcagtcctcatgcctataatcccagcactttaggaggattgagcctaggagtttgagaccatcctgggctggtttgatgagtttgactccatctgttccaaaaataaaagt
s panTro5.chr21               8781059 127 +  33445071 tggaaataggctgggtgcagtcctcatgcctataatcccagcactttaggaggattgagcctaggagtttgagaccatcctgggctggtttgatgagtttgactccatctgttccaaaaataaaagt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320144 127 +  46275980 tggaaataggctgggtgcagtcctcatgcctataatcccagcactttaggaggattgagcctaggagtttgagaccatcctgggctggtttgatgagtttgactccatctgttccaaaaataaaagt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303421 127 -  13858734 tggaaacaggctgggtgcagtcctcatgcctataatcccagcactttaggaggattgagcctaggagtttgagaccatcctgggctggtttgatgagtttgactccatctgttccaaaaataaaatt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327091 126 +  32716333 tggaaata-gctgggtgcagtcctcatgcctataatcccagcactttaggaggattgagcctaggagtttgagaccatcctgggctggtttgatgagtttgactccatctgttccaaaaataaaagt
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563004 127 +  50472720 TGGGAATAGGGTGGATGTAGTCctcatgcctatattcccagcactttgggaggcttgagtcctggagtttgagaccatcctgggctggtttgatgagtttgactccatctctgcaaaaaatgaaagt
i calJac3.chr21             C 0 I 4
s cebCap1.NW_016107322v1     13979274 125 -  14377064 tagaaataggctggatgcagtcctcatgcctatattcccagcactttgggaggattgagtcccggggtttgagaccatcct-ggttggtttgatgagtttgactccatctctgcaaaaaataaagg-
i cebCap1.NW_016107322v1    C 0 I 3
s aotNan1.NW_018487195v1      9200201 127 -   9889416 TGGAAATAggctggatgcagtcatcatgcctatattcccagcactttgggaggcttgagttctggagtttgagaccatcctgggctggtttgatgagtttgaccccatctctacaaaaaataaaagt
i aotNan1.NW_018487195v1    C 0 I 1421
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e canFam3.chr31              18075263   9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919983   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=14228.000000
s hg38.chr21_GL383579v2_alt    169019 10 +    201197 aaaaaaattg
s panTro5.chr21               8781186 10 +  33445071 aaaaaaatta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320271 10 +  46275980 aaaaaaatta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303548  9 -  13858734 -aaaaaatta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327217 10 +  32716333 aaaaaaatta
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563135 10 +  50472720 aaaaaaaaaa
i calJac3.chr21             I 4 C 0
s cebCap1.NW_016107322v1     13979402 10 -  14377064 aaaaaaaata
i cebCap1.NW_016107322v1    I 3 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18075263  9 +  39895921 I
e aotNan1.NW_018487195v1      9200328 1421 -   9889416 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919983  0 -  38779656 C
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=401905.000000
s hg38.chr21_GL383579v2_alt    169029 187 +    201197 gccaggtgtggtggtacatgcctgtgatttcagcaacttgggaggctgagatgaggggattgcttgagtccaggaggt-----tgaggccgcaatgagcaaaga-ctatgccactgcactccagcctgggtgacagagcaagaatgtctcaaagaagaaaaataataagtaaatacaaataaaat-gaaaaata
s panTro5.chr21               8781196 187 +  33445071 gccaggtgtggtggtacatgcctgtgatttcagcaacttgggaggctgagatgagaggattgcttgagtccaggaggt-----tgaggccgcaatgagcaaaga-ctatgccactgcactccagcctgggtgacagagcaagaatgtctcaaagaagaaaaataataagtaaataaaaataaaat-gaaaaata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320281 187 +  46275980 gccaggtgtggtggtacatgcctgtgatttcagcaacttgggaggctgagatgagaggattgcttgagtccaggaggt-----tgaggccacaatgagcaaaga-ctatgccactgcactccagcctgggtgacagagcaagaatgtctcaaagaagaaaaataataagtaaataaaaataaaat-gaaaaata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303557 185 -  13858734 gccaggtatggtggtacatgcctgtgatttcagcaacttgggaggctgagatgagaggattgcttgagtccaggaggt-----tgaggccgcaatgagc--aga-ctatgccactgcactccagcctgggtgacagagcaagaatgtctcaaagaagaaaaataataagtaaatacaaataaaat-gagaaata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327227 187 +  32716333 gccaggtgtggtggtacatgcctgtgatttcagcaacttgggaggctgagatgagaggactgcttgagtacaggaggt-----tgaggccgcaatgagcaaaga-ctatgccactgcactccagcctgggtgacagagcgagaatgtctcaaagaagaaaaataataaataaatacaaataaaat-gaaaaata
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563145 192 +  50472720 gccagatgtgttggtacatgcctgtggtttcagcaacttgggaggctgaggtgagaggactgcttgagtccaggaggttgaggtgaggcttcagtgagcaaaaatatgctacactacacaacagcctgggtgacagagaaagaatgtctcaaagaagaaaa--aataaataaaTATGaataaaataaaaaaatt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979412 185 -  14377064 gccagatgtgttggtacatgcctgtggtttcagcaacttgggaggctgaggtgagaggacttcttgagtccagaaggt-----tgaggcttcagtgagcaaaag-atgctacactacacaacagcctggatgacagagctagaatgtctcaaagaagaaaa--gataaataaatatgaataaaat-gaaaaatt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9201749 185 -   9889416 gccagatgtgttggtacatgcctgtggtttcagcaacttgggaggctgaggtgagaggactgcttgagttcaggagat-----tgaggtttcagtgagcaaaaa-atgctacactacacaacagcctgggtgacagagcaagaatgtctcaaagaagaaaa--gataaataaaTGTGAATAAAAT-GAAAAATT
i aotNan1.NW_018487195v1    I 1421 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e canFam3.chr31              18075263   9 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919983   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=13041.000000
s hg38.chr21_GL383579v2_alt    169216 5 +    201197 aaaag
s panTro5.chr21               8781383 5 +  33445071 aaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320468 5 +  46275980 aaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303742 5 -  13858734 aaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327414 5 +  32716333 aaaaa
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563337 5 +  50472720 aaaaa
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979597 5 -  14377064 aaaag
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9201934 5 -   9889416 AAAAA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18075272 5 +  39895921 AACAA
i canFam3.chr31             I 9 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24919983 0 -  38779656 C
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=106574.000000
s hg38.chr21_GL383579v2_alt    169221 39 +    201197 tggaaataaGTATTTGTAACAATAGCATGTGCCAGAAGA
s panTro5.chr21               8781388 39 +  33445071 tggaaaTAAGTATTTGTAACAATAGCATGTGCCAGAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320473 39 +  46275980 tggaaataaGTATTTGTAACAATAGCATGTGCCAGAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303747 39 -  13858734 tggaaataaGTATTTGTAACAATAGCATGTGCCAGAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327419 39 +  32716333 aggaaaTAAATATTTGTAATAATAGCACATGCCAGAAGA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563342 39 +  50472720 tGGAAATAAATATTTGTAACAACAGCATGTGCAAGAAGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13979602 39 -  14377064 tgGACATAAATATTTGTAACAACATTATGTGCAAGAAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9201939 39 -   9889416 TGGAAATAAATATTTGTAACAACAGCATGTGCAAGAAGA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24919983 28 -  38779656 TGGAAATAAACATTTGTCATGAT-----------GAAAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18075277 39 +  39895921 TGGAAATATTTATTTGCAGAGATAGAAATTCTCAGAAGA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2477203 10054 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=1123098.000000
s hg38.chr21_GL383579v2_alt    169260 389 +    201197 TTCTGTTTTTCATAGGATCGTTTCACAAATCAAATTTTCCAAAATCAGATGT--------TAAAACAGATTTTGAGATACAAACT----GTTTATTAGGGATCAACAG-TTATTAAAGGAAGTGGGTGGAAGCCAGATTGGGCAA---AAGAAG---TGCAAATGCAACAA--AATCCAAA-------CTATTATTGGCTGATCCAGCATCACGGTTTCAAAGAAAATTTGGTATGAAATACAAAATGCATAGTCA-TTCCAGGTTCTATAAATATTTTTCTGAGTACAT-TTTTTAAATCTCAAGGAGAGATACAA-CT-TATACC-CAAAAAATAACATTT-AGTATGAG-AAAAATATTTTAAATATTTACTAAATCATTGACAGAATTTAAGATTCTATGAGCTTACTAATAGAATTCTT
s panTro5.chr21               8781427 388 +  33445071 TTCTGTTTTTCATAGGATCGTTTCACAAATCAGATTTTCCAAAATCATATGT--------TAAAACAGATTTTGAGATACAAACT----GTTTATTAGGGATCAACAG-TTATTAAAGGA-GTGGGTGGAAGCCAGATTGGGCAA---AAGAAG---TGCAAACGCAATAA--AATCCAAA-------TTATTATTGGCTGATCCAGCATCACGGTTTCAAAGAAAATTTGGTATGAAATACAAAATGCATAGTCA-TTCCAGGTTCTATAAATATTTTTCTGAGTACAT-TTTTTAAATCTCAAGGAGAGATACAA-CT-TATACC-CAAAAAATAACATTT-AGTATGAG-AAAAATATTTTAAATATTTACTAAATCATTGACAGAATTTAAGATTCTATGAGCTTACTAATATAATTCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320512 388 +  46275980 TTCTGTTTTTCATAGGATCGTTTCACAAATCAGATTTTCCAAAATCATATGT--------TAAAACAGATTTTGAGATACAAACT----GTTTATTAGGGATCAACAG-TTATTAAAGGA-GTGGGTGGAAGCCAGATTGGGCAA---AAGAAG---TGCAAATGCAATAA--AATCCAAA-------TTATTATTGGCTGATCCAGCATCACGGTTTCAAAGAAAATTTGGTATGAAATACAAAATGCATAGTCA-TTCCAGGTTCTATAAATATTTTTCTGAGTACAT-TTTTTAAATCTCAAGGAGAGATACAA-CT-TATACC-CAAAAAATAACATTT-AGTATGAG-AAAAATATTTTAAATATTTACTAAATCATTGACAGAATTTAAGATTCTATGAGCTTACTAATAGAATTCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8303786 389 -  13858734 TTCTGTTTTTCATAGGATCGTTtcacaaatcagattttccaaaatcagatgt--------taaaacagattttgagatacaaact----gtttattagggatcaacag-ttattaaaggaagtgggtggaagccagattgggcaa---aagaag---TGCAAAGGCAACAA--AATCCAAA-------TTATTATTGGCTGATCCAGCATCACGGTTTCAAAGAAAATTTGGTATGAAATACAAAATGCATAGTCA-TTCCAGGTTCTATAAATATTTTTCTGAGTACAT-TTTTTAAATCTCAAGGAGAGATACAA-CT-TATACC-CAAAAGATAACATTT-AGTATGAG-AAAAATATTTTAAATATTTACTAAATCATTGACAGAATTTAAGATTCTATGAGCTTACTAATAGAATTCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327458 389 +  32716333 TTCTATTTTTCATAGGATTGTTTCACAAATCAGATTTTCCAAAATCAGATGT--------TAAAACAGATTTTGAGATACAAACT----GTTTATTAGGGATCAACAG-TTATTAAAGGAAGTGGGTGGAAGCCAGATTTAGCAA---AAGAAG---TGCAAATGCAACAA--AATCCAAA-------TTATTACTGGCTGATCCGGCATCATGATTTCAAAGAAAATTTGGTATGAAATACAAAATTCATAGTCA-TTCCAGGTTCTATAAACATTTTTCTGAGTACAT-TTTTTAAATCTCAAGGAGAAATACAA-CT-TATACC-CAAAAAATAACATGT-AGTATGAG-AAAAATATTTTAAATATTTACTAAATCATTGACAGAATTTAAGGTTCTATGAGCTTGCTAATAGAATTCTT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563381 367 +  50472720 TGCTATTTTTTATAGAAGTGTTTCACAAGTCAGATTTTCCAAAACCAGAGGT--------TAAAAAAGAATTTGAGATACAAACA----CTTTATTAGGGATCAACAC-TTATTAAAGAAAGTGGGTGGAAGCCAGATTCAGCAA------AAG---TGCAAATACAATAA--AATCCAAA-------TTATTGTTGGCTAATCCAGCATCATGGTCTCAAGGAAAATTTGGTATGAAATAAAAATTTCATAGTCA-TTCCAAGTTC--TAAATA--TTTTTGAGTATAT-TTTTTAAGTCTCAAGAAGAGATACAA-CT-TATACCGCAAAAAATAATACTT-AGTATGAG-AAAAAAAATTTATATGTTTACAAAATCTTGGACAGAATTCA----------------CTAATATAAttctt
i calJac3.chr21             C 0 I 232
s cebCap1.NW_016107322v1     13979641 376 -  14377064 TGCTATTTTTCATAGAATTGTTTCACAAATCAGATTTTCCAAAACCAGATGT--------TAAAACAGACTTCGAGATACAAACCCTTTCTTTATTAGGGATCAACACTTTATTAAAGGAAGTGGGTGGAAGCCAGATTGAGCAA---AAGAAG---TGCAAATGAAATGA--AATCCAAA-------TTATTGTTGGCTAATCCAGCATCATGGTTTCAAAGAAAATTTGACATGAAATAAAAAATTCATAGTCA-TTCCAAGTTC--TAAAAAAGTTTTTGAGTATAT-TTTTTAAGTCTCCAGGAGAGATACAA-CT-TATACCCCAAAAAATAACATTT-AGTATGAG--AAAATATTTTAAATATTTACTAAATCTTTGACAGAATCCA----------------CTAACATAATTCTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9201978 371 -   9889416 TGCTATTTTTCATAGAATTGTTTCACAAGTCAAATTTTCCAAAACCAGATGT--------CAAAACAGACTTTGAGATACAAACA----CTTTACTAGGGATCAACAC-TTATTAAAGGAGGTGGGTGGAAGCCAGACTGAGCAA---AAGAAG---TGCAAATACAATGA--AGTCCAAA-------TTATTGTTGGCTAATCCAGCATCATGGTTGCAAAGAAAATTTGGTATGAAATAAAAAATTCATAGTCA-TTCCAAGTTC--TAAATA-TTTTTTGAGTATAT-TTTTTAAGTCTCAAGGAGAGATACAA-CT-TATACCCCAAAAAATAATATTT-AGTATGAG-AAAAATATTTTAAATATTTACTAAATCTTTGACAGAATTCA----------------CTAATAGAATTCGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24920011 379 -  38779656 TGCCACTTTCAATAGCATTGTTTCACAAATCATACATCCCCAAAGCAGATGT--------TAAAACAGATTT-----------------ATTTCTTAAAGATCAACAT-CTGTGAAAGGAAGTGAGTGGAAGCTGAATTGAGGAA---ATGAAGACATTAAAATATAATGA--AGTCCAAA-------ATGTTATTGGC-AATCCAGTATTATGATTTCAAAGAAAATTCAGTATGTAATAGAAAACTTGTATTCC-ATCCAAATTCTACTTATGTTTTTCTCAGTATATATTTTTAAGTTTCAAGGAGACATACAATCC-TATACT-CCAAAAATAACATTTGGGTATGAG-AAAAATATTTTGAATATTTACTAAATCACTGACATGGTTTTAGATTATATGAGTCAGCTAATTATATTT--
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18075316 391 +  39895921 TGTTACTTTT-GTGGGATAATTTCATCGATCATATTAGCCAGACAcagatgg--------taaaacagaattgggggtacaaaat----gttttatatgggttaagac-ctaaaaaagca-aaaggtgaaaggaggattgggcaaaggaagaag---tttaactgcaatgACGATTAAAAA-------CATTTCTTAGCTAATT--GTGTTACAGTTTCAAAGAAAATTGGATATGAAATAGAAAATTCATCGTGGCTTCCAGACAC--ATTTTTTTTTTCTGAAAATA--CTTTTAAATTCCAAAAAGAGATACAA-CTCTATATT-GAAAAAAGAACATTTTGGTATAAGAAAAAATATTTTGTATACTAATTACATCATCAATGCAGTTTAAGATTCTGTGGGCTAGGTAATAGGATTTTT
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2487257 388 +   3081153 TTCTGTTTTCCTTTGCTTTGTGTCATTTATTACCATATTCAGTAATATATATTTAGACAATGATACAGATTTTTAGATACAAAAT----GTTAAtta-gaatcaacac-ctataaaaagaagggggtggactcaggattggacaaagagagaag---tttaagtgcaatga--aggccaaaACTATTTTAAGTATTGGCTAGCCCAGTAT-ATGGCTTCAAAGAAAACTTGGGATAAAATAGAAAATT----GTGG-TTCCAGATTCCAAAAACCTTTTTTTCTGAATAT-GATTTAAGT------GATATAAGCAG-CTTTATACC-TAAAAAGAAACATT--GACATAAG--AAAATATTCTTAATAATTGCTAAACCATGTATACAATCTAAGATTTAATGAG----CTGACAACATAT--
i dasNov3.JH578070          I 10054 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=61768.000000
s hg38.chr21_GL383579v2_alt    169649 21 +    201197 TTAGAATAATCTTTTCTCCTA
s panTro5.chr21               8781815 21 +  33445071 TTGGAATAATCTTTTCTCCTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320900 21 +  46275980 TTGGAATAATCTTTTCTCCTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304175 21 -  13858734 TTAGAATAATCTTTTCTCCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327847 21 +  32716333 TTAGAATAATCTTTTCTCCTA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26563980 21 +  50472720 ttagAAGAATCTTTTCACCTA
i calJac3.chr21             I 232 C 0
s cebCap1.NW_016107322v1     13980017 21 -  14377064 TTAGAAGAATCTTTTCACCTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9202349 21 -   9889416 TTAGAAGAATCTTTTCACCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24920390 21 -  38779656 AGAAAAAAATTTTTTCTTCTA
i otoGar3.GL873528          C 0 I 10
s canFam3.chr31              18075709 21 +  39895921 GAAAGACAATTTTTTTTCATA
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2487645 20 +   3081153 -TTGGCAATTTTTTTCTCATA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=16692.000000
s hg38.chr21_GL383579v2_alt    169670 10 +    201197 GATG----AGAGTA
s panTro5.chr21               8781836 10 +  33445071 GATT----AGAGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320921 10 +  46275980 GATT----AGAGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304196 10 -  13858734 GATT----AGAGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327868 10 +  32716333 GATT----AGAGTA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26564001 14 +  50472720 GATTACATAGAGTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980038 14 -  14377064 GATTACACAGAGTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9202370 14 -   9889416 GATTACATAGAGTA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18075730  5 +  39895921 ---------GAATA
i canFam3.chr31             C 0 I 7
s dasNov3.JH578070            2487665  5 +   3081153 ---------GAATA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24920411 10 -  38779656 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=492265.000000
s hg38.chr21_GL383579v2_alt    169680 153 +    201197 AGTAATATGCAAAAAAA----ATTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAACCTTCCAATATTTTACTTTTCCAAA-ATCAAAGGAAAA--TGAGCCTGCATATTTTACCTAA------ATGTGTAATAATTACT-ACTAAA
s panTro5.chr21               8781846 152 +  33445071 AGTAATATGCAAAAAAA-----TTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAACCTTCCAATATTTTACTTTTCCAAA-ATCAAAGGAAAA--TGAGCCTGCATATTTTACCTAA------ATGTGTAATAATTACT-ACTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22320931 153 +  46275980 AGTAATATGCAAAAAAA----ATTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAACCTTCCAATATTTTACTTTTCCAAA-ATCAAAGGAAAA--TGAGCCTGCATATTTTACCTAA------ATGTGTAATAATTACT-ACTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304206 153 -  13858734 AGTAATATGCAAAAAAA----ATTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAACCTTCCAATATTTTACTTTTCCAAA-ATCAAAGGAAAA--TGAGCCTGCATATTTTACCTAA------ATGTGTAATAATTACT-ACTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9327878 154 +  32716333 AGTAATATGCACAAAAA---TATTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAACCTTCCAGTATTTTACTTTTCCAAA-ATCAAAGGAAAA--TGAGCCTGCATATTTTACTTAA------ATGTGTAATAATTACT-ACTAAA
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26564015 157 +  50472720 AGTATTATGCACACAAAGAATTTTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAATCTTTCAATATTTTACTCTTACAAA-ATCCAAGGAAAA--TGAGCCTGCATATTTTACTTAA------ATGTGTAATAATTACT-ACTAAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980052 159 -  14377064 AGTATTATGCACACAAAGAATTTTGGACAGCTAAACAAAGAGCACTGTAATTGCAACAAATTCTTCTGATTATATAAATCTTCCAATATTTTACTTTTCCAAA-ATCAAAGGAAAA--TGAGCCTACatattttacttaa------atatgtaataattact-actaaa
i cebCap1.NW_016107322v1    C 0 I 42
s aotNan1.NW_018487195v1      9202384 156 -   9889416 AGTATTATGCACACAAAGAATTTTGGACAGCTAAACAAAGCACACTGTAATTGCAACAAACTCTTCTGAT--TATAAATCTTCCAATATTTTACTCTTCCAAA-ATCAAAGGAAAA--TGAGCCTGCATATTTTACTTAA------ATGTGTAATAATTACT-ACTAA-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24920421 156 -  38779656 AATAATATTCCCAAATAGAACTTTGAACAGCTAAACAAAGAATATCGTTATTGGAACAAAC-CTTCCAAT--TGTAAACCTTGCAATATTTTATTTACC---A-ATCGAAGGAAAGATGGAGTTTACATATTTTTCTGAA------ATGTGTAGTAACAAGTAACTAAA
i otoGar3.GL873528          I 10 C 0
s canFam3.chr31              18075742 156 +  39895921 AATTCTATGTATAAACAGAGTTTTGGACAGTTGAACGAAACTCATTGTTACTTCACCAGACTCTTCCTAT--TAAAAACATTCCAATATTTTACTTTTCTAAT-ATCAAAGAGAAG---GAGTCTGCTTATTTTACCCAA------ATGTCTAATAATTATT-AGTCAA
i canFam3.chr31             I 7 I 1
s dasNov3.JH578070            2487670 153 +   3081153 AATAA-ATGCATTCATT---TTTAGGGCACTTAAGCTGAACACAATGTTACTCCAGTGTACTCTACTAAT--GATAAATATCCAAATATTTTACTTTACCAAGTTTTAAAGGAAAA--TGAATCTTCATATTTGGTCCACTTTTCTATGTGTATTATTCAA--------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=13797.000000
s hg38.chr21_GL383579v2_alt    169833 12 +    201197 AATTGCACTATA------------------------------
s panTro5.chr21               8781998 12 +  33445071 AATTGCACTATA------------------------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321084 12 +  46275980 AATTGCACTATA------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304359 12 -  13858734 AATTGCACTATA------------------------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9328032 12 +  32716333 AATTGCACTATA------------------------------
i nomLeu3.chr25             C 0 I 32
s calJac3.chr21              26564172 11 +  50472720 -ATAATACTATA------------------------------
i calJac3.chr21             C 0 I 31
s aotNan1.NW_018487195v1      9202540 12 -   9889416 AATTATACTATA------------------------------
i aotNan1.NW_018487195v1    C 0 I 31
s otoGar3.GL873528           24920577 12 -  38779656 AATTATTCTATA------------------------------
i otoGar3.GL873528          C 0 I 12
s canFam3.chr31              18075899  7 +  39895921 AATTATT-----------------------------------
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2487823 42 +   3081153 AATTATCCTATTATTTTATTCTAATTTTTCACTGAGTAAGAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13980211 42 -  14377064 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=258159.000000
s hg38.chr21_GL383579v2_alt    169845  92 +    201197 TT------TAATAAGCCTGAGGAGACCATTCAGTT-CAGCAT------TCT------------------------------GTGTTAACTTGACATAAAGATCACGTATTCATTAATATTTTGCCACAATAATCT
s panTro5.chr21               8782010  92 +  33445071 TT------TAATAAGCCTGAGGAGACCATTCAGTT-CAGCAT------GCT------------------------------GTGTTAACTTGACATAAAGATCACGTATTCATTAATATTTTGCCACAATAATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321096  92 +  46275980 TT------TAATAAGCCTGAGGAGACCATTCAGTT-CAGCAT------TCT------------------------------GTGTTAACTTGACATAAAGATCACGTATTCATTAATATTTTGCCACAATAATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304371  92 -  13858734 TT------TAATAAGCCTGAGGAGACCTTTCAGTT-CAGCAT------TCT------------------------------GTGTTAACTTGACATAAAGATCACATATTCATTAATATTTTGCCACAATAATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9328076  87 +  32716333 TT------TAATAAGCCTGAGGAGACCATTCAGTT-CAGCAT------TCT------------------------------GTG-----TTGACATAAAGATCATGTATTCATCAATATTTTGCCACAATAATCT
i nomLeu3.chr25             I 32 I 426
s calJac3.chr21              26564214  91 +  50472720 TT------TAATAAGCCAAAGGAGACTATTCAGTG-CAGCAT-------CT------------------------------GTGTTAACTTGACATAAAGACCATGTATTCATTAAAATTTTGCCACAATAATCT
i calJac3.chr21             I 31 C 0
s cebCap1.NW_016107322v1     13980253  91 -  14377064 TT------TAATAAGCCTGAGGAGACTATTCAGTG-CAGCAT-------CT------------------------------ATGTTAACGTGACATACAGATCATGTATTCATTAATATATTGCCACAATAATCT
i cebCap1.NW_016107322v1    I 42 C 0
s aotNan1.NW_018487195v1      9202583  90 -   9889416 TT------TAATAAGTCTGAGGAGAGTATTCAGTG-AAGCAT-------CT-------------------------------TGTTAACTTGATGTAAAGATCATGTATTCATTAATATTTTGCCACAATAATCT
i aotNan1.NW_018487195v1    I 31 C 0
s otoGar3.GL873528           24920601  98 -  38779656 TTATCGAACAATAACCCACAGTAGACTATTCATCT-TAGCCT------TCT------------------------------CTGTTAAACTGATGTATAGACCATGTATTCATTGATATTTTGCCTCAAAAATCT
i otoGar3.GL873528          I 12 C 0
s canFam3.chr31              18075906  92 +  39895921 TT------TAA-AAGGCTTAGAATA--ATTGAGTTATAGTATAAGAAGCCT------------------------------GAGAAAAC----CATAAAGATCATGTACTGTTTAATATTTTGCCTCAAAAATGT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2487865 122 +   3081153 TA------TAGTACATCTGAGGTGAGCATTCAGTT-CAATTT------CCTTAAGattatatattcattatataattcattatataatCTTTCCAGAAAGattatatattaattaatatttCACCTTTAAAATCT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=4500.000000
s hg38.chr21_GL383579v2_alt    169937 1 +    201197 C
s panTro5.chr21               8782102 1 +  33445071 C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321188 1 +  46275980 C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304463 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s calJac3.chr21              26564305 1 +  50472720 C
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980344 1 -  14377064 C
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9202673 1 -   9889416 C
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24920699 1 -  38779656 C
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18075998 1 +  39895921 C
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2487987 1 +   3081153 C
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I
e nomLeu3.chr25               9328163 426 +  32716333 I

a score=764662.000000
s hg38.chr21_GL383579v2_alt    169938 274 +    201197 AAATTTCATACATGCAATTAGTAAGAAGTTTCCATTCAATACCAAGAATTGAGAGTA-AAACCAGACTTTCTA--------TAATTTTGTGTTT-----------------------------------AATTTGTAGATGAAATATCATACCAACATTTCAGTTAACCTTATGAACATTTTGCTTAAATCCTTCAATATTTTGTTTTGAAACATGAATATACCTTCTCTGCAATTA------TAAATTATTCAGTTTA-CAAAGGATCAATCACATTGTTGCTTT----CTTTTTTTGAGGTTTTAAGCTATTTTAATCTGGTCCTTC
s panTro5.chr21               8782103 270 +  33445071 AAATTTCATGCATGCAATTAGTAAGAAGTTTCCATTCAATACCAAGAATTGAGAGTA-AAACCAGGCTTTCTA--------TAATTTTGTGTTT-----------------------------------AATTTGTAGATGAAATATCATACCAACATTTCAGTTAACCTTATGAACATTTTGCTTAAGTGCTTCAATATTTTGTTTTGAAACATGAATATACTTTTTCTGCAATTA------TAAATTATTCAGTTTA-CAAAGGATCA----CATTGTTGCTTT----CTTTTTTTGAGATTTTATGCTATTTTATTCTGTTCTTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321189 270 +  46275980 AAATTTCATACATGCAATTAGTAAGAAGTTTCCATTCAATACCAAGAATTGAGAGTA-AAACCAGGCTTTCTA--------TAATTTTGTGTTT-----------------------------------AATTTGTAGATGAAATATCATACCAACATTTCAGTTAACCTTATGAACATTTTGCTTAAGTGCTTCAATATTTTGTTTTGAAACATGAATATACTTTTTCTGCAATTA------TAAATTATTCAGTTTA-CAAAGGATCA----CATTGTTGCTTT----CTTTTTTTGAGATTTTATGCTATTTTATTCTGTTCTTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304464 266 -  13858734 ----TTCATACATGCAATTAGTAAGAAGTTTCCATTCAATACCAAGAATTGAGAGTA-AAACCAGGCTTTCTA--------TAATTTTGTGTTT-----------------------------------AATTTGTAGATGAAATATCATACCAACATTTCAGTTAACCTTGTGAACATTTTGCTTGAATACTTCAATATTTTGTTTTGAAACATGAATATACTTTCTCTGCAATTA------TAAATTATTCAGTTTA-CAAAGGATCA----CATTGTTGCTTT----CTTTTTTTGAGGTTTTATACTATTTTATTCTGTTCTTTC
i gorGor5.CYUI01015003v1    C 0 I 10
s nomLeu3.chr25               9328589 266 +  32716333 AAATTTCATACATGCAATTATTAAGGAGTTTCCACTCAATACCAAGAATTGAGAGTA-AAACCAGGCTTTCTA--------TAATTTTGTATTT-----------------------------------AATTTGTAGATGAAATATCATACCAACATTTCAGTTAACCTTACGG----TTTGTTTAAATACTTCAATATTTTGCTTTGAAACATGAATACACTTTCTCTGCAATTA------TAAATTATTCAATTTA-CAAAGGATCA----CACTGTTGCTTT----CTTTTTTTGACGTTTTATGCTATTTTCTTCTGTTCTTTT
i nomLeu3.chr25             I 426 C 0
s calJac3.chr21              26564306 265 +  50472720 AAATTTTCTACATGCAA-TATTAAGGAGGTTCCATTCAATACCCGGAATTGAGAGCA-ACACCAGGCTTTCTG--------TAATTTTGTATTT-----------------------------------AACTTTTAGATGAAATATCATACCAACATTTCACTTAACCCTGCAG----TTTGCTTAAATACTTCAATATTTTGTTTTGAAACATGAATATACTTTCTCTGCAATTA------TAAAACATTCATTTTA-AAATAGATCA----CATTGTTGCTTT----CTTATCTTAAGGATTTGTGCTATTTTCTTCTGTTCTTTT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980345 265 -  14377064 AAATTTCCTACATGCAA-TATTAAGGAGGTTTCATTCAATTTCTGGAATTGAGGGTG-AAACCAGGCTTTCTA--------TAATTTTGTATTT-----------------------------------AGCTTTTAGATGAAATACCATACCAACATTTCACTTAACCCTACAG----TTTGCTTAAATACTTCAATATTTTGTTTTGAAACATGAATATACTTTCCCTGCAATTA------TAAAACATTTATTTTA-AAATAGATCA----CATTGTTGCTTT----CTTATCTTAAGGATTTATGCTATTTTCTTCTGTTCTTTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9202674 265 -   9889416 AAATTTCCTGCATGCAA-TATTAAGAAGGTTCCATTCAATACCCAGAATTGAGAGTA-AAACCAGGCTTTCTA--------TAATTTTGTATTT-----------------------------------AACTTTTAGATGAAATATCATACCAATATTTCACTTAACCCTACAG----TTTGCTTAAATACTTCAATATTTTGTTTTGAAACATGAATATACTTTCTCTGCAATTA------TAAAACATTCATTTTA-AAATAGATAA----CATTGTTGCTTT----CTTATCTTACGGATTTATGCTATTTTCTTCTGTTCTTTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24920700 309 -  38779656 AAATTCTATACATTCAA---ATAAGAGCTGTTCATTCACTATCCAGAACCAAGGGTAGAAACCAGTTTTCCTAAGTTTATTTTATTTTATTTTCATCACGTATCAAGTGGTGGAGTACTTTTCTTCCTGAAGTTTTAGAGGTAATATCATTCCAGTATTTCAGTTAACCTTAAGA-CATTTTGCTTAAGTATTTCGATATTTTGTTTTAAAATATGATTATACTTCTTCTGCACTTATGTATTTAATTTATTCAATTTT-TAAAAAGGCA----TACTATCGATTT----CTTA----GAGAATCTATACCATTATCTTCTTTTAA---
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18075999 259 +  39895921 AACTACTATCCATGCAA---TTAGAGAGTTTTCATTCACTACCCAGAATTGAGGGTA-GAATCACTCTATCTG--------TAATGTTATACTT-----------------------------------CTTTTTTACATGCAATATTATCCCAACATTTTACTTAA------GAAAAGTTTGCTTAAGGACTTTAGTATTTCATTTTGAAAAACGAATATACTTACTTTGAAATTACGAACTCAATTTATTCAAGTGATAAAAGGGTCA----CGCTAACACTTTCATCCTTTTCTAAAGATCTCATGTTTTTAT-------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2487988 270 +   3081153 AAATACTGTATATGAAA---TTTTGGGGTTTTAATTAAA-GTCCAGAATTGAGGGTA-GAATCAATCTATCTC--------TAAACCTATACTT-----------------------------------AATTTACAGATGCAATATCTCCCCAATGCTTTACTTTGCCTTAACAACA-TTTGTTTAAGTATGGTAACTTTTTGTTTAGAAAAATGAATGCACTTACTTTGTAATTATAATATTAATATAGTCAATTGA-AACAAAGGGA----CATATTAACTTT----CTTATTTTAAGATTTTATAC-ATTTCTTCCTAGTCTTTT
i dasNov3.JH578070          C 0 I 3
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=-9839.000000
s hg38.chr21_GL383579v2_alt    170212 13 +    201197 -AATTGGTGGTGGT
s panTro5.chr21               8782373 11 +  33445071 -ATTTGTTGTTG--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321459  8 +  46275980 -ATTTGTTG-----
i panPan2.chr21             C 0 C 0
s nomLeu3.chr25               9328855  6 +  32716333 -ATTTGT-------
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26564571  8 +  50472720 -ATTTGGTA-----
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980610  8 -  14377064 -ATTTGGTA-----
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9202939  8 -   9889416 -ATTTGGTA-----
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24921010  7 -  38779656 -ACTTTTT------
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18076258  1 +  39895921 ----T---------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2488261  8 +   3081153 AACTTAAT------
i dasNov3.JH578070          I 3 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e gorGor5.CYUI01015003v1      8304730 10 -  13858734 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=355305.000000
s hg38.chr21_GL383579v2_alt    170225 139 +    201197 ttttt---ttttttccaaatacacatattcacat--ttctaaaagtcaaatggctcaacgaggttt-ttac---caaaa-agtagattcctttttttcactttactcatttctcccttcccagagacacagggtttcaacttgtt-----------------------------------------------cagt
s panTro5.chr21               8782384 139 +  33445071 ttttt---ttttttccaaatacacatattcacat--ttctaaaagtcaaatggctcaacgaggttt-ttac---caaaa-agtagattcctttttttcactttactcatttctcccttcccagagacatggggtttcaacttgtt-----------------------------------------------cagt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321467 138 +  46275980 -tttt---ttttttccaaatacacatattcacat--ttctaaaagtcaaatggctcaacgaggttt-ttac---caaaa-agtagatttgtttttttcactttactcatttctcccttcccagagacatggggtttcaacttgtt-----------------------------------------------cagt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304740 139 -  13858734 TTGTT---ttttttccaaatacacatattcacat--ttctaaaagtcaaatggctcaacgaggttt-ttac---caaaa-agtagattcctttttttcactttactcatttctcccttcccagagacatggggtttcaacttgtt-----------------------------------------------cagt
i gorGor5.CYUI01015003v1    I 10 C 0
s nomLeu3.chr25               9328861 140 +  32716333 ttttt---ttttccccaaatacacatattcacat--ttctaaaagtcaaatggctcaatgagatttgttac---caaaa-agtagcttcctttttttcactttactcatttctcccttcccagagacatgggctttcaacttgtt-----------------------------------------------cagT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26564579 141 +  50472720 TAtat---ttttttccaaatatacataagcatat--ttctaaaagacaaatgcctcaacaagttttgttac-aaaaaaa-agtctcttct-ttttttcacgttactcatttctctcttccaagagacatgggctttgaacttgtt-----------------------------------------------cagT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980618 143 -  14377064 TATAT--ATTTTTTCCAAATATACATAAGCATGT--TTCTAAAAGACAAATGCCTCAACAAGTTTTGTTGCAAAAAAAA-AGTCGCTTCC-TTTTTTCACTTTACCCCTTTCTCTCTTCTCAGAGAAATGGGCTTTCAACTTGTT-----------------------------------------------CAGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9202947 142 -   9889416 TATATAtattttttccaaatgtacataagcatat--ttctaaaagacaaatgcctcaacaagttttgttac---aaaaa-agtctcttcc-ttttttcactttacccatttctctcttcccagagacatgggctttgaacttgtt-----------------------------------------------cagT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24921017 186 -  38779656 TTCAT---TTATTTTCATATATGCCTATGTATAT--TTCCAAAAGTCAAAAGACTCAACAAGGTATGTTAC---AAAAACAATACCTTTG--TTCCTCACTTTGACCATTTCTCTTTTCCAAAAGACATAGACTTTAAAGTTATTAAAATAATAACTAATAATATCAAGTTTCTTTCAAACTATTTCAATAATAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18076259 140 +  39895921 TCAtt---tcatttttacatatatatatgaaaattatttgaagagtcaaatgggtcaacaaggtttattac---aaaaacaacatgttcc-cttcctcatgttacacattt-tctctcctcagagacaggaacttttaactt-tt-----------------------------------------------AACC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2488269 138 +   3081153 TTCAT---TATTTTGTGTTTATACGTGTACATGG--TTTTAAGTAAAAAAAAGAT-AACAATGTTTGTTAA---GAAAGCAACAACTTCC-CTTCTTCACTTTGCCTATTTCTTCCTTTCCA-AGGTTTTGATTTTCAACTTGTT-----------------------------------------------CAAT
i dasNov3.JH578070          C 0 I 6784
e micMur3.chr31              23746592 4855 +  47401472 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=76832.000000
s hg38.chr21_GL383579v2_alt    170364 29 +    201197 actaactttcttctaagc--------------tatttTGCATt
s panTro5.chr21               8782523 29 +  33445071 actaactttcttctaagc--------------tatttTGCATt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321605 29 +  46275980 actaactttcttctaagc--------------tatttTGCATt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304879 29 -  13858734 actaactttcttctaagc--------------tatttTGCATt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329001 29 +  32716333 ATTAACTTTCTTCTAAGC--------------TATTTTGCACt
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26564720 29 +  50472720 ATCTACATTTTTCTAAGC--------------TATTTTGCACt
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980761 29 -  14377064 ATCAATATTTTTCTAAGC--------------CATTTTGCACt
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9203089 29 -   9889416 ATCAACATTTTTCTAAGC--------------TATTTTGCATt
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24921203 29 -  38779656 ATCGACTTTCTTTCAAAC--------------TATTTTGAATT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18076399 43 +  39895921 AATAACATCATTTGATACAACATTTGATACAATATTTTGTATT
i canFam3.chr31             C 0 I 441
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=1292184.000000
s hg38.chr21_GL383579v2_alt    170393 512 +    201197  
s panTro5.chr21               8782552 512 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22321634 512 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8304908 514 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329030 516 +  32716333  
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26564749 520 +  50472720  
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13980790 514 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9203118 525 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24921232 552 -  38779656  
i otoGar3.GL873528          C 0 I 1766
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e canFam3.chr31              18076442 441 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=12740.000000
s hg38.chr21_GL383579v2_alt    170905 5 +    201197 ATAAT
s panTro5.chr21               8783064 5 +  33445071 ATAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322146 5 +  46275980 ATAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8305422 5 -  13858734 ATAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329546 5 +  32716333 ATAAT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26565269 5 +  50472720 ATAAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13981304 5 -  14377064 ATAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9203643 5 -   9889416 ATAAT
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984 2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18076442 441 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24921784 1766 -  38779656 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=150206.000000
s hg38.chr21_GL383579v2_alt    170910 56 +    201197 GTGTAAATTTCAAATACATGTCA-AAATCTTTTTTAGCTCTAATCTGGGGTGGTAGT
s panTro5.chr21               8783069 56 +  33445071 GTGTAAATTTCAAATACATGTCA-AAATCTTTTTTAGCTCTAATCTGGGGTGGTAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322151 56 +  46275980 GTGTAAATTTCAAATACATGTCA-AAATCTTTTTTAGCTCTAATCTGGGGTGGTAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8305427 56 -  13858734 GTGTAAATTTCAAATACATGTCA-AAATCTTTTTTAGCTCTAATCTGGGGTGGTAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329551 56 +  32716333 GTGTCAATTTCAAATACATGTCA-AAATATTTTTTAGCTCTAATCTGGGGTGGTAGT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26565274 56 +  50472720 GTGTCAATTTCAAATACATGTCA-AAATCCTTTTTAGCTCTAATCTGGGGTGGGAGT
i calJac3.chr21             C 0 I 1894
s cebCap1.NW_016107322v1     13981309 56 -  14377064 GTGTCAATTTCAAATACATGTCA-AAATTCTTTTTAGCTCTATTCTGGGGTGGTAGT
i cebCap1.NW_016107322v1    C 0 I 1773
s aotNan1.NW_018487195v1      9203648 56 -   9889416 GTGTCAATTTCAAATACATGTCA-AAATCCTTTTTAGCGCTAATCTGGGGTGGTAGT
i aotNan1.NW_018487195v1    C 0 I 1785
s otoGar3.GL873528           24923550 57 -  38779656 GCATCAATTTTTAATATATATTGCAGGGTCCTTTGAGCTCTCCTCTGGACTGGTAGT
i otoGar3.GL873528          I 1766 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e canFam3.chr31              18076442 441 +  39895921 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=71177.000000
s hg38.chr21_GL383579v2_alt    170966 72 +    201197 TAGCTGGGTCTTGGGCATTATGCCCATCTTGCCAACGCTATtcatctctttcctggatagaatgat-tttttt
s panTro5.chr21               8783125 72 +  33445071 TAGCTGGGTCTTGGGCATTATGCCCATCTTGGCAACGCTATTCATCTCTTTCCTGGATAGAATGAT-TTTTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322207 73 +  46275980 TAGCTGGGTCTTGGGCATTATGCCcatcttggcaacgctattcatctctttcctggatagaatgatatttttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8305483 73 -  13858734 TAGCTGGGTCTTGGGCATTATGCCcatcttggcaacgctattcatctctttcctggatagaatgatttttttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329607 71 +  32716333 TAGCTGGGTCTCAGGCATTATGCCCACCTTGGCAATGCTATTAATctctttcctggatagaatga--tttttt
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24923607 68 -  38779656 --GTTGGGTCTGGTGCGTTGTG-CTACCCGGGTAACTCTATTCAGCTCTTCCCAGTACAGAAGGT--TCTGTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18076442 441 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=180725.000000
s hg38.chr21_GL383579v2_alt    171038 186 +    201197 ttcttttcctattcctcatttagtcctaattttgggtaaaacacttc-------tagttacttac---taagggaggttgcatgagt--ggtaatt--ttttgagattgtattcatttaattaaactctcgtatttgatagacaattgcttggatattgaatttttgccaaa-ccttatttt------gtttattttggatg--cattg
s panTro5.chr21               8783197 187 +  33445071 TTCttttccttttcctcatttagtcctaattttgggtaaaacacttc-------taattacttac---taaggaaggttgcatgagt--ggtaatt--ttttgagattgtattcatttaattaaactctcgtatttgatagacaattgcttggatgttgaatttttgccaaaaccttatttt------gtttattttggagg--cattg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322280 187 +  46275980 ttcttttccttttcctcatttagtcctaattttgggtaaaacacttc-------taattacttac---taaggaaggttgcatgagt--ggtaatt--ttttgagattgtattcatttaattaaactctcgtatttgatagacaattgcttggatattgaatttttgccaaaaccttatttt------gtttattttggagg--cattg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8305556 187 -  13858734 ttcttttccttttcctcatttagtcctaattttgggtaaaacacttc-------tgattacttac---taaggaaggctgcatgagt--ggtaatt--ttttgagattgtattcatttaattaaactctcgtatttgatagacaattgcttggatattgaatttttgccaaaaccttatttt------gtttattttggagg--cattg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329678 189 +  32716333 ttcttttcctttgtctcatataatcctcattttgggtaaaacacttc-------tagttacttac---taaggaaggttgcacgagtggggtaatt--ttttgagattgtattcatttaattaaactctcatatttgatagacaattgcttggatattgaatttttgccaaaaccttatttt------gtttattttggagg--cattg
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24923675 185 -  38779656 TCCTTTCCCTGTCTCTCACGCATTCCTCATTTTTGGTAAAATATCCC-------T-GCTACTAGCATATAAAAAAGATT----GAAT--CGTAATTTGTTGTGTGGCTATATTCTCTTAATTAACTTTTTATATTTG-------ATTGGTTGGATATTGGCTGTTAACCCAA-CATCATTTTCTTTTCTTTTAATTTTGCTT--CATTG
i otoGar3.GL873528          C 0 I 247
s canFam3.chr31              18076883 185 +  39895921 TCCTCTTCCCATATCTCTTCTATCTCCAGCCCCAGCCACAGTCCTACAGGGCCATAATCTCCTGT---GCTGTGAAAT-------GT--CATAATT--TTCTATATTAGATCTATTTTCATTCATTTCCTTTAATAATTAGTGAATTTTTTCAGTCTAGAAATT----CAAAACATTTTTGT------GTAAATGTTCAAGTTCCATTG
i canFam3.chr31             I 441 I 4
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=530536.000000
s hg38.chr21_GL383579v2_alt    171224 435 +    201197 ctccattAAACTATAACAAATCACATGTCTGTAGGCTTCACTGTTCTTACCTTTAAAAAGTGTT---ATCtt-taaaaagaaaatgcataaagaaattattacaaatctatgctaattgtaatacagtgtataatg-aggtcatttgtgataaaagtagtataaaagagtgatgaa-----------acatggcaatagaggagcaaatatttgaatattattgaaattacattcctattaatctgacttggattgttgtaaatcatgatgttaatGAAAATGGCATACCCCTACAGG-TTTAGAAAATCCAGAAAGGGTACAGCATTC-ATTGAAAGGAT--ATCAAGTAATCTT-----------TTTTG----TATATTTCAAAGTGAAGTAACCAGACTGA------TACATCCCTAGTGATGctcaccctcagaacctgtga----------gcatgttatcttgtt-----atgaa-aaataaaac
s panTro5.chr21               8783384 434 +  33445071 ctccattAAACTATAACAAATCACATGTCTGTAGGCTTCACTGTTCTTATCTTTAAAAA-TGTT---ATCtt-taaaaagaaaatgcataaagaaattattacaaatctatgctaattgtaatacagtgtataatg-aggtcatttgtgataaaaatagtataaaagagtgatgaa-----------acatggcaatagaggagcaaatatttgaatattattgaaattacattactattaatctgacttggattgttgtaaatcatgatgttaatGAAAATGGCATACCCCTACAGG-TTTAGAAAATCTGGAAAGGGTACAGCATTC-ATTGAAAGGAT--ATCAAGTAATCTT-----------TTTTG----TATATTTCAAAGTGAAGTAACCAGACCGA------TACATCCCTAGTGATGctcaccctcagaacctgtga----------gcatgttatcttgtt-----atgaa-aaataaacc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322467 435 +  46275980 ctccattAAACTATAACAAATCACATGTCTGTAGGCTTCACTGTTCTTATCTTTAAAAAGTGTT---ATCtt-taaaaagaaaatgcataaagaaattattacaaatctatgctaattgtaatacagtgtataatg-aggtcatttgtgataaaaatagtataaaagagtgatgaa-----------acatggcaatagaggagcaaatatttgaatattattgaaattacattactattaatctgacttggattgttgtaaatcatgatgttaatGAAAATGGCATACCCCTACAGG-TTTAGCAAATGTGGAAAGGGTACAGCATTC-ATTGAAAGGAT--ATCAAGTAATCTT-----------TTTTG----TATATTTCAAAGTGAAGTAACCAGACTGA------TACATccctagtgatgctcaccctcagaacctgtga----------gcatgttatcttgtt-----atgaa-aaataaacc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8305743 432 -  13858734 ctccattAAACTATAACAAATCACATGTCTGTAGGCTTCAATGTTCTTATCTTTAAAAAGTGTT---ATCtt-taaaaagaaaatgcataaagaaattattacaaatctatgctaattgtaatacagtgtataatg-aggtcatttgtgatcaaaataatataaa--agtgataaa-----------acatggcaatagaggagcaaatatttgaatattattgaaattacattactattaatctgacttggattgttgtaaatcatgatgttaatGAAAATGGCATACCCC-ATAGG-TTTAGAAAATCCGGAAAGGGTACAGCATTC-ATTGAAAGGAT--ATCAAGTAATCTT-----------TTTTG----TATATTTCAAAGTGAAGTAACCGGACCGA------TACATCCCTAGTGATGctcaccctcagaacctgtga----------gcatgttatcttgtt-----atgaa-aaataaacc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9329867 418 +  32716333 ctccattAAACTATAAAAAATCACATGTCTGTAGGCTTCACTGTTCTTATCTTTAAAAAGTGTT---ATCtt-taaaaagaaaatgcataaagaaattattacaaatctatgctaattggaatacagtgtataatg-aggtcatctgtgataaaaataatgtaaaagagtgatgaa-----------acagggcaataggggagcaaatgtttgaatattattgaaattacattactattaatctgacttggattgttgtaaatcatgatgttaatGAAAATGACATACCCCTATAGG-TTTAGAAAATCCGGAAAGGGTACAGCATTC-ATTGAAAGGAT--ATCAAGTAATCTT-----------TGTTG----TTTATTTCCAAGTGAAGTAACCAGACTGA------TA----------------Cacccccagaacctgtga----------gcatgttatcttg-t-----atgaa-aaataaacc
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24924107 427 -  38779656 TTCTACTAAACTACA--AGTTAACATCTTCCTAAACTTCACTATTCTTATCTTTAAAAAGTGTTCTAATCTT-CAaaaagaaactgc---aagtaattattaaaaatctatgtaaattagcatgcaatatataatg-aagtcatttgtgatacaa-----ataaaggagggatgga-----------acaaagctatacaggagtgaaggtttgaatattactgaaatgacattactattaagcggacctggattgttataaattattatgttaatggaaatGGCACACTCC-ATAGA-CTTAGAAAATCCCCAAAGAGTACAATATTCTATTAAAAGGAT--ATCAAGTAACCTT-----------T-TTG----CTTCTTTCAAAGTACAGCAATCAAATTGA------TGCAGccctgatgatgttcagcccaagaccctgtga----------gaatgttaccttgtt-----atgca-aaatagact
i otoGar3.GL873528          I 247 C 0
s canFam3.chr31              18077072 480 +  39895921 TTCCCCTATACTAT---AAGTTACATTTCCCTAGGCTTCACTGTCTTTATTTTTAAAAAGTGTTCTTATtttaaaaaaaggaactacataa---aataatttaaaatgttgattgatggaaccataatatataaaatatctcatttgtgataaaaatagcataaaggaagggtgaacatatactcctatactactttataggagtaaatgttaaattactattaaaattacattgctattaatcttaactagaatattataaattaTTATTTTAGTGGACATAACTTATTTCTGTAGGATTTAGAAAATCCCAAAGGGAAgaggca----cctgagtggttcagtcggttaagcttcagactcttggttttggctccttatctcagggtcatgggatccagctgggttggttccatgctcaatga--ctctgcttaagattcgctgcccctcatcctgctttttctctctttctctaataaataaataaaac
i canFam3.chr31             I 4 I 199
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=35595.000000
s hg38.chr21_GL383579v2_alt    171659 30 +    201197 ttgcagatgtgattaagattaaggaccttc
s panTro5.chr21               8783818 30 +  33445071 ttgcagatgtgattaagattaaggaccttc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322902 30 +  46275980 ttgcagatgtgattaagattaaggaccttc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306175 30 -  13858734 ttgcagatgtgattaagattaaggaccttc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9330285 30 +  32716333 ttgcagatgtgattaaggttaaggaccttg
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24924534 30 -  38779656 ttgtagaagtgattaaaatgaaggacctgg
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18077552 199 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I

a score=152721.000000
s hg38.chr21_GL383579v2_alt    171689 172 +    201197 aggtgaggagattattctggtgatatgatttggctgtgtccccacccaaatctcaacttgaattgtatctcccagaattcccacatgttgtgagagggacctagggggaggtaattgattcatgggggctggtctttcctgtgctattctcatgatgatgaataagtctcat
s panTro5.chr21               8783848 172 +  33445071 aggtgaggagattattctggtgatatgatttggctgtgtccccacccaaatctcaacttgaattgtatctcccagaattcccacatgttgtgagagggacctagggggaggtaattgattcatgggggctgttctttcctgtgctattctcatgatgatgaataagtctcat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22322932 172 +  46275980 aggtgaggagattattctggtgatatgatttggctgtgtccccacccaaatctcaacttgaattgtatctcccagtattcccacatgttgtgagagggacctagggggaggtaattgattcatgggggctgttctttcctgtgctattctcatgatgatgaataagtctcat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306205 171 -  13858734 aggtgaggagattattctggtgatatgatttggctgtgtccccacccaaatctcaacttgaattgtatctcccagaattcccacatgttgtgagagggaccta-ggggaggtaattgattcatgggggctggtctttcctgtgctattctcatgatgatgaataagtctcat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9330315 170 +  32716333 aggtgaggagattattctggtgatatgatttggctgtgtccccactcaaatctcaacttgaattgtatctcccagaattcccacgtgttgtgagagggacccaggggaaggtaattgattcatgggggctggtctttcctgtgctattctcatgatgatgaacaagtcat--
i nomLeu3.chr25             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18077552 199 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24924564   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I

a score=95045.000000
s hg38.chr21_GL383579v2_alt    171861 178 +    201197 gagatctgatgggtttatcgggagtttctgcttttgattcttcctcattttctcttgccactcccatgtaagaagtgccttctgcctcccgccatgattctgaggcctccccagccatgtggaactctaagtccaattaaacctctttttcctcccagtctcaggtatgtctttatca
s panTro5.chr21               8784020 178 +  33445071 gagatctgatgggtttatcgggagttgctgcttttgattcttcctcattttctcttgccactcccatgtaagaagtgccttctgcctcccgccatgattctgaggcctccccagccatgtggaactctaagtccaattaaacctctttttcctcccagtctcaggtatgtctttatca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323104 178 +  46275980 gagatctgatgggtttatcgggagttgctgcttttgattcttcctcattttctcttgccactcccatgtaagaagtgccttctgcctcctgccatgattctgaggcctccccagccatgtggaactctaagtccaattaaacctctttttcctcccagtctcaggtatgtctttatca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306376 177 -  13858734 gagagctgatgggtttatcgggagtttctgcttttgattcttcctcatgttctcttgcaactcccatgtaagatgtgccttctgcctcccgccatgattctgaggcct-cccagccatgtggaactctaagtccaattaaacgtctttttcctcccagtctcaggtatgtcttaatca
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18077552 199 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24924564   0 -  38779656 C
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=28368.000000
s hg38.chr21_GL383579v2_alt    172039 49 +    201197 gcagcgtgaaaatgaactaatacacctggattaactaggcagcctaatc
s panTro5.chr21               8784198 49 +  33445071 gcagcgtgaaaatgaactaatacacctggattaactaggcagcctaatc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323282 49 +  46275980 gcagcgtgaaaacgaactaatacacctggattaactaggcagcctaatc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306553 49 -  13858734 gcagcgtgaaaatgaactaatacacctggattaactaggcagcctaatc
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24924564 41 -  38779656 gcatggtgagagtaagctaggttgcgcaggttagcggg--------ata
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18077552 199 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=251348.000000
s hg38.chr21_GL383579v2_alt    172088 289 +    201197 taaacactttgactccttaaaagtgataatctttcctgagtgaagtagaagt----------atga----gaataaggagagatttcaagt----gt----gaaactgcct-caccgtaaatggctttcaagatagaggaaggaagatgaaagat--gagcc--aagaaatgtgggtagcctcaaacagctggaaacagtcctca-ctgacagccagtaagaaaagaaggatttaagttcaacaactacaagggtcagaatttggctaatgacctgtatgagcaaaagaacaatacctacctcaaatccttcagaaa
s panTro5.chr21               8784247 289 +  33445071 taaacactttgactccttaaaagtaataatctttcctgagtgaagtagaagt----------atga----gaataaggagagatttcaagt----gt----gaaactgcct-caccgtaaatggctttcaagatagaggaaggaagatgaaagat--gagcc--aagaaatgtgggtagcctcaaacagctggaaacagtcctca-ctgacagccagtaagaaaagaaggatttaagttcaacaactacaagggtcagaatttggctaatgacctgtatgagcaaaagaacaatacctacctcaaatccttcagaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323331 289 +  46275980 taaacactttgactccttaaaagtgataatctttcctgagtgaagtagaagt----------atga----gaataaggagagatttcaagt----gt----gaaactgcct-caccgtaaatggctttcaagatagaggaaggaagatgaaagat--gagcc--aagaaatgtgggtagcctcaaacagctggaaacagtcctca-ctgacagccagtaagaaaagaaggatttaagttcaacaactacaagggtcagaatttggctaatgacctgtatgagcaaaagaacaatacctacctcaaatccttcagaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306602 288 -  13858734 taaacactttgactccttaaaagtgataatctttcctgagtgaagtagaagt----------atga----gaataaggagagatttcaagt----gt----gaaactgcct-caccgtaaatggttttcaagatagaggaaggaagatgaaagat--gagcc--aagaaatgtgggtagcctcaaacagctggaaacagtcctca-ctgacagccagtaagaaaagaaggatttaagttccacaactacaa-ggtcagaatttggctaatgacctgtatgagcgaaagaacaatacctacctcaaatccttcagaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24924605 297 -  38779656 tgcatac-ttgactccttaaaagtgagaatcttccctgggtgagttagaaatacacagtggaataa----gaagggggagagctctgaagcacgaga----gaaactgtcc-cacggttgatgactttccagatggagaacaga-----gaacac--tagccagaaaaaatgtgggtggtctccaaaaactgacagcagtcctcagctgacatccagcaagtaaacaaggatttgagtcctagaactacaa-ggaatgaattctgcaaatgacctgaat--gcaagggaacgattcctattttagacccaccaaaaa
i otoGar3.GL873528          C 0 I 75
s canFam3.chr31              18077751 287 +  39895921 taatcac-ttgagtccttaaaactggtcatgtttcctgggtaaagtagaaag----------ataagatggaaaaagaagcaattt---gt----gtgaaagaaactatctccacaattgctggctttcaagatggtggttgaaggaagaaagacaggaacc--aagaaatgtgattggtctccagaagtaggga----ttctcagctggcagctagaaaggaaacagggatttaagtactataactggaaggaactgaattctgtcaatgacct------gcaaggagacagttcctatcctagagtctccagaaa
i canFam3.chr31             I 199 I 13
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=41676.000000
s hg38.chr21_GL383579v2_alt    172377 57 +    201197 ggaaatacctttattttagtcctgtgagacctgta-------------agataatacatatgtgtagttt
s panTro5.chr21               8784536 57 +  33445071 ggaaatacctttattttagccctgtgagacctgta-------------agataatacatatgtgtagttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323620 57 +  46275980 ggaaatacctttattttagccctgtgagacctgta-------------agataatacatatgtgtagttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306890 57 -  13858734 ggaaatacctttattttagccctgtgagacctgta-------------agataatacgtatgtgtagttt
i gorGor5.CYUI01015003v1    C 0 C 0
s canFam3.chr31              18078051 70 +  39895921 gaagaaaccttggcattagctctgtgagacctgtatcaggcttctgtgagataatacatttgtgctgctt
i canFam3.chr31             I 13 I 1
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e macFas5.chr3              167373984  2 - 192294377 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24924902 75 -  38779656 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=153617.000000
s hg38.chr21_GL383579v2_alt    172434 289 +    201197 ttggttttttgttttagtttttgtttttttctgagatggaatcttgctctgtgcaccaggctggagtgccctggcgcgatctcgcctcactgcaagctccacctcccgggttcgcaccattctcctgcctcagcctcccgagtagctgggactacagatgcccgccaccgtgcccggctaattttttgtatttttagtagagacggggtt---------------------------tcaccgtgttagccaggatggtcttgatctcctgacctcgtgatccgcccacctcggcctcccaaagtgctgggattac
s panTro5.chr21               8784593 289 +  33445071 ttggttttttgttttagtttttgtttttttctgagatggagtcttgctctgtgcaccaggctggagtgccctggcgcgatctcgcctcactgcaagctccaccacccgggttcgcaccattctcctgcctcagcctcccgagtagctgggactacagacgcccgccaccgtgcctggctaattttttgtatttttagtatggacggggtt---------------------------tcaccgtgttagccaggatggtctcgatctcctgacctcgtgatccgcccccctcggcctccgaaagtgctgggattac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323677 289 +  46275980 ttggttttttgttttagtttttgtttttttctgagatggagtcttgctctgtgcaccaggctggagtgccctggtgcgatctcgcctcactgcaagctccaccacccgggttcgcaccattctcctgcctcagcctcccgagtagctgggactacagacgcccgccaccgtgcctggctaattttttgtatttttagtatggacggggtt---------------------------tcaccgtgttagccaggatggtctcgatctcctgacctcgtgatccgcccccctcggcctccgaaagtgctgggattac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8306947 316 -  13858734 ttggttttttgttttagtttttgtttttttctgagattgagtcttgctctgtgcaccgggctggagtgccctggcgcgatctcggctcactgcaagctccacctcccgggttcgcaccattctcctgcctcagcctccccagtagctgggactacagacgcccgccaccatgcccggccaattttttgtatttttagtagagacggggtttcaccgtgttagccaggatggtctcgatcaccgtgttagccaggatggtctcgatctcctgacctcgtgatccgcccacctcggcctcccaaagtgctgggattac
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581  23 +  21915920 I
e macNem1.NW_012015021v1      5009999  23 -  30496662 I
e macFas5.chr3              167373984   2 - 192294377 I
e rheMac8.chr3              160739301  23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078121   1 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24924902  75 -  38779656 I
e colAng1.NW_012120598v1      5299183  23 -  13750039 I
e manLeu1.NW_012103476v1      3542074  23 +   7543664 I
e chlSab2.chr2               20023963  23 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=2386.000000
s hg38.chr21_GL383579v2_alt    172723 3 +    201197 agg
s panTro5.chr21               8784882 3 +  33445071 agg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323966 3 +  46275980 agg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307263 3 -  13858734 agg
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167373986 3 - 192294377 AGA
i macFas5.chr3              I 2 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cerAty1.NW_012002954v1     13522581 23 +  21915920 I
e macNem1.NW_012015021v1      5009999 23 -  30496662 I
e rheMac8.chr3              160739301 23 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078121 1 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24924902 75 -  38779656 I
e colAng1.NW_012120598v1      5299183 23 -  13750039 I
e manLeu1.NW_012103476v1      3542074 23 +   7543664 I
e chlSab2.chr2               20023963 23 -  90373283 I
e nomLeu3.chr25               9330485 0 +  32716333 C

a score=112006.000000
s hg38.chr21_GL383579v2_alt    172726 25 +    201197 cgtgagccactgcgcctggccctac
s panTro5.chr21               8784885 25 +  33445071 cgtgagccactgcgcctggccctac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323969 25 +  46275980 cgtgagccactgcgcctggccctac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307266 25 -  13858734 cgtgagccactgcgcctggccctac
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739324 25 - 185818997 CGTGAGGCACCACGCCCGGCCCTAC
i rheMac8.chr3              I 23 C 0
s macFas5.chr3              167373989 25 - 192294377 CGTGAGGCACCACGCCCGGCCCTAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010022 25 -  30496662 CGTGAGGCACCACGCCCGGCCCTAC
i macNem1.NW_012015021v1    I 23 C 0
s cerAty1.NW_012002954v1     13522604 25 +  21915920 CGTGAGGCACCACGCCCGGCCCTAC
i cerAty1.NW_012002954v1    I 23 C 0
s chlSab2.chr2               20023986 25 -  90373283 CGTGAGCCACCACGCCCGGCCCTAC
i chlSab2.chr2              I 23 C 0
s manLeu1.NW_012103476v1      3542097 25 +   7543664 CGTGAGGCACCACGCCCGGCCCTAC
i manLeu1.NW_012103476v1    I 23 C 0
s colAng1.NW_012120598v1      5299206 25 -  13750039 CGTGAGCCACCGAGCCCAGTCCTAC
i colAng1.NW_012120598v1    I 23 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078121  1 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24924902 75 -  38779656 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=71170.000000
s hg38.chr21_GL383579v2_alt    172751 14 +    201197 atgtgtgtagtttt
s panTro5.chr21               8784910 14 +  33445071 atgtgtgtagtttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22323994 14 +  46275980 atgtgtgtagtttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307291 14 -  13858734 atgtgtgtagtttt
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739349 14 - 185818997 ATGTGCATAGTTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167374014 14 - 192294377 ATGTGCGTAGTTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010047 14 -  30496662 ATGTGCGTAGTTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13522629 14 +  21915920 ATGTGCGTAGTTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20024011 14 -  90373283 ATGTGCGTAGTTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3542122 14 +   7543664 ATGTGCGTAGTTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5299231 14 -  13750039 ATGTGCGTAGTTGT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24924977 14 -  38779656 atccgtgtcatttt
i otoGar3.GL873528          I 75 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078121  1 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=619956.000000
s hg38.chr21_GL383579v2_alt    172765 129 +    201197 aagctaacaagtgtgtgatgatttactaaggcatcacta-caaaccaatacaTGCATTTT-----GAAA-----------ATAAAGATAGAATACCTATATGAAT----TAACGAACTGGCATGAACAGTGGGAAGGGGTAGTGGTATCA
s panTro5.chr21               8784924 129 +  33445071 aagctaacaagtgtgtgatgatttactaaggcatcacta-caaaccaatacaTGCATTTT-----GAAA-----------ATAAAGATATAATACCTATATGAAT----TAACGAACTGGCATGAACAGTGGGAAGGGGTAGTGGTATCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22324008 129 +  46275980 aagctaacaagtgtgtgatgatttactaaggcatcacta-caaaccaatacaTGCATTTT-----GAAA-----------ATAAAGATATAATACCTATATGAAT----TAACGAACTGGCATGAACAGTGGGAAGGGGTAGTGGTATCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307305 129 -  13858734 aagctaacaagtgtgtgatgatttactaaggcatcacta-caaaccaatacaTGCATTTT-----GAAA-----------ATAAAGATAGAATACCTATATGAAT----TAACGAACTGGCATGAACAGTGGGAAGGGGTAGTGGTATCA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739363 122 - 185818997 AAGCTAACAAGTGTATGATGATTTGCTAAGGCATCATGA-CAAACCAATACATGCATTTT-----GAAA-----------ACAAATAT---ATACATATGTGAAT----T----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167374028 122 - 192294377 AAGCTAACAAGTGTATGATGATTTGCTAAGGCATCATGA-CAAACCAATACATGCATTTT-----GAAA-----------ACAAATAT---ATACATATGTGAAT----T----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010061 122 -  30496662 AAGCTAACAAGTGTATGATGATTTGCTAAGGCATCATGA-CAAACCAATACATGCATTTT-----GAAA-----------ACAAATAT---ATACATATGTGAAT----T----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13522643 122 +  21915920 AAGCTAACAAGTGTGTGATGATTTGCTAAGGCATCACGA-CAAACCAATACATGCATTTT-----GAAA-----------ACAAATAT---ATACATATGTGAAT----T----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20024025 122 -  90373283 AAGCTAACAAGTGTGTGATGATTTGCTAAGGCATCACGA-CAAACCAATACATGCATTTT-----GAAA-----------ACAAATAT---ATACATATGTGAAT----T----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3542136 122 +   7543664 AAGCTAACAAGTGTGTGATGATTTGCTAAGGCATCACGA-CAAACCAATACATGCATTTT-----GAAA-----------ACAAATAT---CTACATATGTGAAT----T----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5299245 126 -  13750039 AAACTAACAAGTGTGTGATGATTTGCTAAGGCATCACGA-CAAACCAATACAAGCATTTT-----GAAA-----------ATAAATAT---ATACATACGTGAATTAACT----AACTAGTATGAACAGTGGGAAGGGGTAGTGGTATCA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24924991 130 -  38779656 aaacgaccacgtttatggtaatttgctaagacatcaatagcaaactaatacaTTAATTTTTTTCCGTAA-----------ATATGCAGTAAACACATGAATCAAT----T----AACTAGTGTAAACAAT-AGAAGGGGTGGTGGTGTCA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18078122 112 +  39895921 aagtcactaaatttgtggtactttgctaaggcatcaagaggaaactcatacaTATATTAT-----TAAATTTTCCTCACGATATACAGTAAATATATGAATGGAT----T----AACTA-------------------------GTGTCA
i canFam3.chr31             I 1 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2488407 6784 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=962808.000000
s hg38.chr21_GL383579v2_alt    172894 168 +    201197 CTGCTTCATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAAT-AGTGATGAGAGA-AG-TAAAGAATGTACCCCAGAAACAGTTTGAA-GTTCCAAGAAAAGTGGATGAGCATTACACTTTCCCAGAATTAAAAAGCCATCAATGTGACTGGA
s panTro5.chr21               8785053 168 +  33445071 CTGCTTCATTTCCAGGGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAAT-AGTGATGAGAGA-AG-TAAAGAATGTACCCCAGAAACAGTTTGAA-GTTCCAAGAAAAGTGGATGAGCATTACACTTTCCCAGAATTAAAAAGCCATCAATGTGACTGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22324137 168 +  46275980 CTGCTTCATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAAT-AGTGATGAGAGA-AG-TAAAGAATGTACCCCAGAAACAGTTTGAA-GTTCCAAGAAAAGTGGATGAGCATTACACTTTCCCAGAATTAAAAAGCCATCAATGTGACTGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307434 168 -  13858734 CTGCTTCATTTCCAGAGCAAATGGCA--CAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAAT-AGTGATGAGAGA-AG-TAAAGAATGTACCCCAGAAACAGTTTGAA-GTTCCAAGAAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739485 167 - 185818997 CTGCTTTATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATATGGATTA-CA-TTTAAATAAGTGATGAGAGA-AG-TAAAGAATGTGCCCTAGAA--AGTTTGAA-GTTCCAAGGAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167374150 167 - 192294377 CTGCTTTATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAATAAGTGATGAGAGA-AG-TAAAGAATGTGCCCTAGAA--AGTTTGAA-GTTCCAAGGAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010183 167 -  30496662 CTGCTTTATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAATAAGTGATGAGAGA-AG-TAAAGAATGTGCCCTAGAA--AGTTTGAA-GTTCCAAGGAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13522765 167 +  21915920 CTGCTTTATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAATAAGTGATGAGAGA-AG-TAAAGAATGTGCCCTAGAA--AGTTTGAA-GTTCCAAGGAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20024147 167 -  90373283 CTGCTTTATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAATAAGTGATGAGAGA-AG-TAAAGAATGTGCCCTAGAC--AGTTTGAT-GTTCCAAGGAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3542258 167 +   7543664 CTGCTTTATTTCCAGAGCAAATGACA--CAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAATAAGTGATGAGAGA-AG-TAAAGAATGTGCCCTAGAA--AGTTTGAA-GTTCCAAGGAAAGTGGATGAGCATTACACTTTCCCAGAACTAAAAAGCCATCAATGTGACTGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5299371 167 -  13750039 CTGCTTTATTTCCAGAGCAAATGACA--TAGTTTCATAATTTAAATGTGGATTA-CA-TTTAAATAAGTGATAAGAGA-AG-TAAAGAATGTGCCCCAGAA--AGTTTGAA-GTTCCAAGGAAAGCGGATGAGCATTACACTTTCCCAGAACTAAAATACCATCAATGTGACTGGA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24925121 162 -  38779656 CCGCACTCTTTTCTGAACAAGGGATG--TAACTTCATAATTCAAATGTAAATTG-TGTTTTAAATAGGCATTGAGAAA-TGTTAGAGAACGTACTCCTAAAGCAGTTTGAA-TGTCC----TAAGTGGATGAACATTACACACTTTCAGAAGTAAAAAA-----AATGTGGCTGGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18078234 171 +  39895921 CTGCATT-TTTCCTGAATAAGTGACATTTAGACTAAAAATTTAAACGGAGATTA-CCTTTTAAAAAGGTGAAGCAAGGTTG-TAGAAAATGCATTCCAGAAATAGTTTGAATGGCATTAGGTAAACAAGTGAACATTATACTTCCCCAGAAT--AAAAGCAACCAGTATGTCTGGA
i canFam3.chr31             C 0 I 235
s dasNov3.JH578070            2495191 153 +   3081153 CTACATTATTTCCTATAAAAGTGACATTTATATTTGTAATTTCAATATGAATTATCA-TTTGAGTAGGTGAAGAGGGGTGG-TAGAAAATATCCTTGGGTGAGAGTTTTAA-AAC--------------------TTATGCTTTCCTCATACCAAAAGGCAACCAGAATGACTGGA
i dasNov3.JH578070          I 6784 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=787427.000000
s hg38.chr21_GL383579v2_alt    173062 140 +    201197 CCAGTATATTATAGTAAATGAATAATAAAGTAAA----TAATCA---TATGTTGTCAAGTTCTAAAATTCTCTGTACCTGCTCTAATGACTTCTTT-TAAGC----AGATCTGTCACTATCAGTTTCCATTAAAATCCAA------ACAAAAAAAGAG
s panTro5.chr21               8785221 140 +  33445071 CCAGTATATTATAGTAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGTACCTGCTCTAATGACTTCTTT-TAAGC----AGATCTGTCACTATCAGTTTCCATTAAAATCCAA------ACAAAAAAAGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22324305 140 +  46275980 CCAGTATATTATAGTAAATGAATAATAAGGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGTACCTGCTCTAATGACTTCTTT-TAAGC----AGATCTGTCACTATCAGTTTCCATTAAAATCCAA------ACAAAAAAAGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307602 140 -  13858734 CAAGTATATTATAGTAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGTACCTACCCTAATGACTTCTTT-TAAGC----AGATCTGTCACTATCAGTTTCCATTAAAATCCAA------ACAAAAAAAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739652 145 - 185818997 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATCATGACTTCTTT-TAAGT----ACATCTGTCACTATCAGTTTCCATTAAAATCCAAACCAT-AAAAAAAAAGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167374317 145 - 192294377 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATCATGACTTCTTT-TAAGC----ACATCTGTCACTATCAGTTTCCATTAAAATCCAAACCAT-AAAAAAAAAGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010350 145 -  30496662 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATCATGACTTCTTT-TAAGC----ACATCTGTCACTCTCAGTTTCCATTAAAATCCAAACCAT-AAAAAAAAAGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13522932 146 +  21915920 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATCATGACTTCTTT-TAAGC----ACATCTGTCACTATCAGTTTCCATTAAAATCCAAACCATAAAAAAAAAAGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20024314 145 -  90373283 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATCATGACTTCTTT-TAAGC----ACATCTGTCACTATCAGTTTCCATTAAAATCCAAACCAT-AAAAAAAAAGAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3542425 145 +   7543664 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATCATGACTTCTTT-TAAGC----ACATCTGTCACTATCAGTTTCCATTAAAATCCAAACCAT-AAAAAAAAAGAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5299538 145 -  13750039 CCAGGATATTATAGCAAATGAATAATAAAGTAAA----TAATCA---TATGTTCTCAAGTTCTAAAATTCTCTGAACCTGCTATAATGACTTCTTT-TAAGC----ACATCTATCACTATCAGTTTCCATTAAAATCCAAACCAA-AAAAAAAAAGAG
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24925283 120 -  38779656 CCAATTGAT--TAGCCAA-AAATAATGGAGTAAATGTTTGATCA---TGTGTTCTCAAGTTCCAAAATCCTCTGTACCTGCTAT----------------GC----ACGTTCATCATGATCAGTTTCCATTAAA------------ATAAAAAAAGAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18078640 149 +  39895921 cCAATTGATTAAATTCAATGAATAATGGAGTTAGTACTTAATCA---TATGTCGTCAAGTCTTGAAAAATTTTGTTCCTGCTGTCATAATTTCCTTATACACGTTGAAATTGAGCATTCTCAATTTCTACCAATATCAAA------ACAGAAAAACAG
i canFam3.chr31             I 235 I 76
s dasNov3.JH578070            2495344 134 +   3081153 CCAATATACTGCTTTCAGTGAATAAGGGAATGAA----TATTTAATTTATGCCCTCAAGTTCTAAAATTCTATATATTTGCTCTCAT---TTTCTT-CATGT----GCTTACACAA--ATCGGTTTCCATGAAGAG----------GCAAAAAGACAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=118978.000000
s hg38.chr21_GL383579v2_alt    173202 29 +    201197 AACAGTA----ATAAAATAAATATATTATATTT
s panTro5.chr21               8785361 29 +  33445071 AACAGTA----ATAAAATAAATATATTATATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22324445 29 +  46275980 AACAGTA----ATAAAATAAATATATTATATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307742 29 -  13858734 AACAGTA----ATAAAATAAATATATTATATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739797 24 - 185818997 AACAGTA----ATAAAATAAA-----TATATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167374462 24 - 192294377 AACAGTA----ATAAAATAAA-----TATATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010495 24 -  30496662 AACAGTA----ATAAAATAAA-----TATATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13523078 24 +  21915920 AACAGTA----ATAAAATAAA-----TATATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20024459 24 -  90373283 AACAGTA----ATAAAATAAA-----TATATCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3542570 24 +   7543664 AACAGTA----ATAAAATAAA-----TATATCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5299683 24 -  13750039 AACAGTA----ATAAAATAAA-----TATATTT
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24925403 22 -  38779656 AACAGTA----AGATAGAAAA-------TATTT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2495478 33 +   3081153 AATAATGGAGCATGAAACAATAATCTTATATTT
i dasNov3.JH578070          C 0 I 564
e micMur3.chr31              23746592 4855 +  47401472 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=3699929.000000
s hg38.chr21_GL383579v2_alt    173231 724 +    201197  
s panTro5.chr21               8785390 724 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22324474 724 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8307771 724 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160739821 725 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167374486 725 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5010519 725 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13523102 725 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20024483 725 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3542594 725 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5299707 725 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24925425 658 -  38779656  
i otoGar3.GL873528          C 0 I 119
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=473078.000000
s hg38.chr21_GL383579v2_alt    173955 88 +    201197 agtaccatgattttggtttccttagaagaagtaaaatgaaag--------atacatagcattaataagtttaatagtagaaatattatgcacataa
s panTro5.chr21               8786114 88 +  33445071 agtaccatgattttggtttccttagaagaagtaaaatgaaag--------atacatagcattaataagcttaatagtagaaatattatgcacataa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325198 88 +  46275980 cgtaccatgattttggtttccttagaagaagtaaaatgaaag--------atacatagcattaataagtttaatagtagaaatattatgcacataa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308495 88 -  13858734 agtaccatgattttggtttccttagaagaagtaaaatgaaag--------atacatagcattaataagtttaatagtagaaatattatgcacataa
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160740546 88 - 185818997 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagatagcattaataagtttaatagtagaaatattatgcacATAA
i rheMac8.chr3              C 0 I 348
s macFas5.chr3              167375211 88 - 192294377 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagatagcattaataagtttaatagtagaaatattatgcacATAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5011244 88 -  30496662 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagatagcattaataagtttaatagtagaaatattatgcacATAA
i macNem1.NW_012015021v1    C 0 I 352
s cerAty1.NW_012002954v1     13523827 88 +  21915920 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagatagcattaataagtttaatagtagaaatattatgcacATAA
i cerAty1.NW_012002954v1    C 0 I 350
s chlSab2.chr2               20025208 88 -  90373283 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagacagcattaataagtttaatagtagaaatattatgcacATAA
i chlSab2.chr2              C 0 I 346
s manLeu1.NW_012103476v1      3543319 88 +   7543664 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagatagcattaataagtttaatagtagaaatattatgcacATAA
i manLeu1.NW_012103476v1    C 0 I 352
s colAng1.NW_012120598v1      5300432 88 -  13750039 aataccacaattttggtttccttagaagaagtaaaatgaaag--------atagataacattaataagtttaatagtagaaatattatgcacATAA
i colAng1.NW_012120598v1    C 0 I 358
s otoGar3.GL873528           24926202 95 -  38779656 AATTTCATAATTTTATTTCCCCTAGAAAAAGTAATATTAAAGGCCTAGAAATACATAGAATTATTGATTTAAATAGTAGAAATATTGTGCACATA-
i otoGar3.GL873528          I 119 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=3065.000000
s hg38.chr21_GL383579v2_alt    174043 3 +    201197 gga
s panTro5.chr21               8786202 3 +  33445071 gga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325286 3 +  46275980 gga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308583 3 -  13858734 gga
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167375299 1 - 192294377 --A
i macFas5.chr3              C 0 I 128
s otoGar3.GL873528           24926297 3 -  38779656 GGA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13523915 350 +  21915920 I
e macNem1.NW_012015021v1      5011332 352 -  30496662 I
e rheMac8.chr3              160740634 348 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5300520 358 -  13750039 I
e manLeu1.NW_012103476v1      3543407 352 +   7543664 I
e chlSab2.chr2               20025296 346 -  90373283 I
e nomLeu3.chr25               9330485 0 +  32716333 C

a score=15743.000000
s hg38.chr21_GL383579v2_alt    174046 22 +    201197 ttgtaat-gaaaaagataatttg
s panTro5.chr21               8786205 22 +  33445071 ttgtaat-taaaaagataatttg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325289 22 +  46275980 ttgtaat-taaaaagataatttg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308586 22 -  13858734 ttgtaat-gaaaaagataatttg
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24926300 23 -  38779656 TTATAATAAAAAAAGAGAATTTG
i otoGar3.GL873528          C 0 I 346
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13523915 350 +  21915920 I
e macNem1.NW_012015021v1      5011332 352 -  30496662 I
e macFas5.chr3              167375300 128 - 192294377 I
e rheMac8.chr3              160740634 348 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5300520 358 -  13750039 I
e manLeu1.NW_012103476v1      3543407 352 +   7543664 I
e chlSab2.chr2               20025296 346 -  90373283 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=75758.000000
s hg38.chr21_GL383579v2_alt    174068 120 +    201197 tttgggaa---cctattccatctaagacccaactaaaaactaaatgaagtaaactaaatccagtttcttctttgtatacttgtagccaagTGGCTTCTTTGCTAAACTTTTT-CTGGAAGAGTT
s panTro5.chr21               8786227 121 +  33445071 tttgggaa---cctattccatctaagacccaagtaaaaactaaatgaagtaaactaaatccagtttcttctttgtatacttgtagccaagTGGCTTCTTTGCTAAATTTTTTTCTGGAAGAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325311 121 +  46275980 tttgggaa---cctattccatctaagacccaagtaaaaactaaatgaagtaaactaaatccagtttcttctttgtatacttgtagccaagTGGCTTCTTTGCTAAATTTTTTTCTGGAAGAGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308608 121 -  13858734 tttgggaa---cctattccatctaagacccaactaaaaactaaatgaagtaaactaaatccagtttcttctttgtatacttgtagccaagTGGCTTTTTTGCTAAATTTTTTTCTGGAAGAGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24926669 112 -  38779656 tttaaaaaaaCCctgtgtcattagggagctaactaaaaacatcatgaaagaaatt-aatccagg---ttctttagagatttgt------GTGGCCTCTTTTCTAA--TTTTTTCCAGGTAAGTT
i otoGar3.GL873528          I 346 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13523915 350 +  21915920 I
e macNem1.NW_012015021v1      5011332 352 -  30496662 I
e macFas5.chr3              167375300 128 - 192294377 I
e rheMac8.chr3              160740634 348 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5300520 358 -  13750039 I
e manLeu1.NW_012103476v1      3543407 352 +   7543664 I
e chlSab2.chr2               20025296 346 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=24669.000000
s hg38.chr21_GL383579v2_alt    174188  89 +    201197 TCTACTTTTATAGGAAGtatata----------------------------tatatatata-----cttcctata--------------------aa----atatatacttcctatatacttcctata-----------------------------------aaa---------------------gtatatgctt-ctata
s panTro5.chr21               8786348 111 +  33445071 TCTACTTTTATAGGAAGTGtata----------------------------tatatatatataca-cttcctata--------------------aa----atatatacttcctatatacttcctata-----------------------------------aaatatatacttcctataaaa---gtatatgctt-ctata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325432 131 +  46275980 TC-ACTTTTATAGGAAGtatata----------------------------tatatatatatatatatatatatatNNNNNNNNNNNNNNNNNNNNA----atatatacttcctatatacttcctata-----------------------------------aaatatatacttcctataaaa---gtatatgctt-ctata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308729 106 -  13858734 TCTACTTTTATAGGAAatatata----------------------------tatatatata-----cttcctata---------------------a----atatatacttcctatatacttcctata-----------------------------------aaatatataCTTCCTATAAAA---ATGTATGCTT-CTATA
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167375428 182 - 192294377 TATATATATACAGGAAGTATGTACATACAGGAAGTATATATATACAGGAAGTATATATATACACA-CTTCCTAGA--------------------AAGTATATATATACTTCCCGTAAAGTACATATACAGGAAGTGTGTGTATATATATATAGGAAGTATATACATATGTACTTCCTATAAAGTATATGTATACTTCCTATA
i macFas5.chr3              I 128 I 39
s otoGar3.GL873528           24926781  32 -  38779656 TCTAC-TTCATGGGAAATATTTA----------------------------CATGTAAACA----------------------------------------------------------------------------------------------------------------------------------------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13523915 350 +  21915920 I
e macNem1.NW_012015021v1      5011332 352 -  30496662 I
e rheMac8.chr3              160740634 348 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5300520 358 -  13750039 I
e manLeu1.NW_012103476v1      3543407 352 +   7543664 I
e chlSab2.chr2               20025296 346 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=32916.000000
s hg38.chr21_GL383579v2_alt    174277 12 +    201197 atatatatata----A
s panTro5.chr21               8786459 14 +  33445071 atatatatata--taA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325563 16 +  46275980 atatatatatatataA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308835 12 -  13858734 atatatatata----a
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160740982 12 - 185818997 ATATATATAAA----A
i rheMac8.chr3              I 348 C 0
s macFas5.chr3              167375649 12 - 192294377 ATATATATAAA----A
i macFas5.chr3              I 39 C 0
s macNem1.NW_012015021v1      5011684 12 -  30496662 ATATATATAAa----a
i macNem1.NW_012015021v1    I 352 C 0
s cerAty1.NW_012002954v1     13524265 12 +  21915920 atatatataaa----a
i cerAty1.NW_012002954v1    I 350 C 0
s chlSab2.chr2               20025642 12 -  90373283 ATATATATAAA----A
i chlSab2.chr2              I 346 C 0
s manLeu1.NW_012103476v1      3543759 12 +   7543664 ATATATATAAA----A
i manLeu1.NW_012103476v1    I 352 C 0
s otoGar3.GL873528           24926813  1 -  38779656 ---------------A
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5300520 358 -  13750039 I
e nomLeu3.chr25               9330485  0 +  32716333 C

a score=1225479.000000
s hg38.chr21_GL383579v2_alt    174289 245 +    201197 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGCATATAGCCTAAAA-AATGCAACTCTCTAGTACAACCTTAGCCGGTTAATCAATAGCTTTTTGTTGAGCTGTGATGGAGGTTACAGTTTCATCA-CAAT----ATTTCCTAAAGTTATAAAAAAAAATTATTACCATGTGTTCATGGAAAGTGACACCCAACCAAGGCAAAAAAGCATTCTCCCAATTAAATGCATGTAACTATCTT
s panTro5.chr21               8786473 244 +  33445071 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGCATATAGCCTAAAA-AATGCAACTCTCTAGTACAACCTTAGCCGGTTAATCAATAGCTTTTTGTTGAGCTGTGATGGAGGTTACAGTTTCATCA-CAAT----ATTTCCTAAAGTTATAAAAAAAA-TTATTATCATGTGTTCATGGAAAGTGACACCCAACCAAGGCAAAAAAGCATTCTCCCAATTAAATGCATGTAACTATCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325579 244 +  46275980 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGCATATAGCCTAAAA-AATGCAACTCTCTAGTACAACCTTAGCCGGTTAATCAATAGCTTTTTGTTGAGCTGTGATGGAGGTTACAGTTTCATCA-CAAT----ATTTCCTAAAGTTATAAAAAATA-TTATTATCATGTGTTCATGGAAAGTGACACCCAACCAAGGCAAAAAAGCATTCTCCCAATTAAATGCATGTAACTATCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8308847 244 -  13858734 caagaagtatttatcaccaagcatacatctccttgcccagtcagcatatagcctaaaa-aatgcaactctctagtacaaccttagccggttaatcaatagctttttgttgagctgtgatggaggttacagtttcatca-caat----atttcctaaagttataaaaaaaa-ttattatcatgtgttcatggaaagtgacacccaaccaaggcaaaaaagcattctcccaaTTAAATGCATGTAACTATCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160740994 243 - 185818997 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGTATATAGCCTAAAA-AATGCAATTGTCTAGTACAACCTTAGCTAGTTAATCAATAGCTTTTTGTTGAGCTGTGATGGAGGTTACAGTTTCATCA-TAAT----ATTTCCTAAAGTTTTAAAAAGA--TTATTGTCATGGGTTCATGGAATGTGATACCCAACAAAGGCAAAAAAGCATTCTTCCAATTAAATGCATGGAACTCTCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167375661 243 - 192294377 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGTATATAGCCTAAAA-AATGCAATTGTCTAGTACAACCTTAGCTAGTTAATCAATAGCTTTTTGTTGAGCTGTGATGGAGGTTACAGTTTCATCA-CAAT----ATTTCCTAAAGTTTTAAAAAGA--TTATTGTCATGGGTTCATGGAATGTGATACCCAACAAAGGCAAAAAAGCATTCTTCCAATTAAATGCATGGAACTCTCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5011696 243 -  30496662 caagaagtatttatcaccaagcatacatctccttgcccaatcagtatatagcctaaaa-aatgcaattgtctagtacaaccttagctagttaatcaatagctttttgttgagctgtgatggAGGTTATGGTTTCATCA-CAAT----ATTTCCTAAAGTTTTAAAAAGA--TTATTGTCATGGGTTCATGGAATGTGATACCCAACAAAGGCAAAAAAGCATTCTTCCAATTAAATGCATGGAACTCTCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13524277 243 +  21915920 caagaagtatttatcaccaagcatacatctccttgcccagtcagtatatagcctaaaa-aatgcaattgtctagtacaaccttagctagttaatcaatagctttttgttgagctgtgatggaggttacagtttcatca-caat----atttcctaaagttttaaaaaga--ttattgtcatgggttcatggaatgtgatacccaacaaaggcaaaaaagcattctcccaaTTAAATGCATGGAACTCTCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20025654 243 -  90373283 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGTATATAGCCTAAAA-AATGCAACTATCTAGTACAACCTTAGCTAGTTAATCAATAGCTTTTTGTTGAGCTGTGATGGAGGTTACAGTTTCATCA-CAAT----ATTTCCTAAAGTTTTAAAAAGA--TTATTGTCATGGGTTCACGGAATGTGATACCCAACAAAGGCAAAAAAGCATTCTCCCAATTAAATGCATGGAACTCTCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3543771 243 +   7543664 CAAGAAGTATTTATCACCAAGCATACATCTCCTTGCCCAGTCAGTATATAGCCTAAAA-AATGCAATTGTCTAGTACAACCTTAGCTAGTTAATCAATAGCTTTTTGTTGAACTGTGATGGAGGTTACAGTTTCATCA-CAGT----ATTTCCTAAAGTTTTAAAAAGA--TTATTGTCATGGGTTCATGGAATGTGATACCCAACAAAGGCAAAAAAGCATTCTCCCAATTAAATGCATGGAACTCTCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5300878 242 -  13750039 CAAGAAGTATTTATCACCAAGCATACACCTCCTTGCCTAGTCACTATATAGCCTAAAA-AATGCAACTGTCTAGTACAACCTTAGCCAGTTAATCAATAGCTTTTTGTT-AGCTGTGATGGAGGTTACAGTTTCATCA-CAAT----ATTTCCTAAAGTTTTAAAAAGA--TTATTGTCATGGGTTCATGGAACGTGATACTCAACAAAGGCAAAAAAGCATTCTCCCAATTAAATGCATGGAACTATCTT
i colAng1.NW_012120598v1    I 358 C 0
s otoGar3.GL873528           24926814 223 -  38779656 TAAGAGCCATTTGTCAT----CATATATCT------------AATATATCATCTAAAGTAATGTGATTGTCTGATACAACCTTAGCTGGCTAAT-AATAGCTTTTTGTCAAGTTGTGACGGAAGCTACAGTTTCCTCAGTAATATACATTTACTAGGGTT-------GAT-TTCTATTCATGTTTTGATGGAAGG-AATACCTTACAAAGGT--AACAGTATTCTCCCCATGACATGTATGGACGTATGTT
i otoGar3.GL873528          C 0 I 18
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=531604.000000
s hg38.chr21_GL383579v2_alt    174534 108 +    201197 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATAGAATAACCATCCCGAATAGATTAGTGGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
s panTro5.chr21               8786717 108 +  33445071 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATAGAATAACCATCCCGAATAGATTAGTGGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325823 108 +  46275980 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATAGAATAACCATCCCGAATAGATTAGTTGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8309091 108 -  13858734 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAACAGAATAACCATCCCGAATAGATTAGTGGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160741237 108 - 185818997 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATGGAATAACCATCCAGAGTAGATCAGTAGTCAGACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i rheMac8.chr3              C 0 I 6071
s macFas5.chr3              167375904 108 - 192294377 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATGGAATAACCATCCAGAGTAGATCAGTAGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i macFas5.chr3              C 0 I 6068
s macNem1.NW_012015021v1      5011939 108 -  30496662 CTTGATGACTAGGCAGATAATGAGCAGATTTCTCCCAAATGGAATAACCATCCAGAGTAGATCAGTAGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i macNem1.NW_012015021v1    C 0 I 6596
s cerAty1.NW_012002954v1     13524520 108 +  21915920 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATGGAATAACCATCCAGAGTAGATCAGTAGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i cerAty1.NW_012002954v1    C 0 I 6064
s chlSab2.chr2               20025897 108 -  90373283 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATGGAATAACCATCCAGAGTAGACCAGTAGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i chlSab2.chr2              C 0 I 6071
s manLeu1.NW_012103476v1      3544014 108 +   7543664 CTTGATGGCTAGGCAGATAATGAGCAGATTTCTCCCAAATGGAATAACCATCCAGAGTAGATCAGTAGTCACACCTAAAGAAAAGTTTGAGGGAACTAATCTAGTGTT
i manLeu1.NW_012103476v1    C 0 I 6057
s colAng1.NW_012120598v1      5301120 108 -  13750039 CTTGATAGCTAGGCAGATAATGAGCAGATTTCTCCCAAATAGAATAACCATCCAGAATAGATCAGTAGTCACACCTAAAGAAAAGTTTGAGGGAACTAGTCTAGTGTT
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24927037  18 -  38779656 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=243489.000000
s hg38.chr21_GL383579v2_alt    174642 293 +    201197 GTGGTTTTTTCAGAGCTATATGTACATAGAGAAGGGAACTCATC-AGTTTGTTGTTTTTTTTTTCATAGCAATAGATATAGACAGAGGAGGAAGAGATATTGCTTTTCATTGTTTCATGCTCTTAGACGTTTATAGGCCCATCAACTAGTATGATGTATC----CTAAGAGATTATATGTAGAATAATTTTACCAAAACCAGCAAGAGAGGAGTCCTATCATACGAAAGAGGCCTAAAAACACGAGTATACTCGTCAACACAAATAGGAGACCAAATGTTTCAGGTGGAGTAAACATT
s panTro5.chr21               8786825 298 +  33445071 GTGGTTTTTTCAGAGCTATATATACATAGAGAAGGGAACTCATCCAGTTTGTTGTTTTTTTTTTCATAGCAATAGATATAGACAGAGGAGGAAGAGATATTGCTTTTCATTGTTTCGTGCTCTTAGATGTTTATAGGCCCATCAACTAGTATGATGTATCTATCCTAAGAGATTATATGTAGAATAATTTTACCAAAACCAGCAAGAGAGGAGTCCTATCATACGAAAGAGGCCTAAAAACACGAGTATACTAGTCAACACAAATAGAAGACCGAATGTTTCAGGTGTAGTAAACATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22325931 297 +  46275980 GTGGTTTTTTCAGAGCTATATGTACATAGAGAAGGGAACTCATCCAGTTTGTTG-TTTTTTTTTCATAGCAATAGATATAGACAGAGGAGGAAGAGATATTGCTTTTCATTGTTTCGTGCTCTTAGACATTTATAGGCCCATCAACTAGTATGATGTATCTATCCTAAGAGATTATATGTAGAATAATTTTACCAAAACCAGCAAGAGAGGAGTCCTATCATACGAAAGAGGCCTAAAAACACGAGTATACTAGTCAACACAAATAGAAGACCAAATGTTTCAGGTGTAGTAAACATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8309199 294 -  13858734 GTGGTTTTTTCAGAGCTATATGTACACAGAGAAGGGAACTCATCCAGTTTGTTGTTTTTTTTTTCATAGCAATAGATATAGACAGAGGAGGAAGAGATATTGCTTTTCATTGTTTCATGCTCTTAGACGTTTATAGGCCCATCAACTAGTATGATGTATC----CTAAGAGATTATATGTAGAATAATTTTACCAAAACCAGCAAGAGAGGAGTCCTATCATATGAAAGAGGCCTAAAAACACGAGTATACTAGTCAACACAAATAGGAGACCAAACGTTTCAGGTGGAATAAACATT
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5301228 289 -  13750039 --GTTTTTTTCAGAGCTATATGTGCATAGAGAAGTGAGTTCATCCAGTTTGTTG--TTTTTTTTCATAGCTATAGATATAGACAGAGGAGGAAGAGATATTGCCCTTCATTGTTTCATGCTCTTAGACATTTGTAGGCCCATCGACTAGTATGATGTATC----ATGAGGGATTATATATAGGACAGTTTTACC-AAACCACCAAGAGAGGAGTCCTATCATATGAAAGAGGCCTAAAAACATAAGTATACTAGTCAACACAAATAGGAGACCAAACATTTCAGGTGAAATAAACATT
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24927037  18 -  38779656 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=187979.000000
s hg38.chr21_GL383579v2_alt    174935 172 +    201197 AGAATCGTGAGGAACTGGGTATACAGCCCAGGTTTGGTATCTTGGCAGAATGGCAGAATCAGACTACCTCAGGTGTCAGCTACTTGATGCCTTGGTCAGAAAGACTGTGAGTCAGCTTCAGTTAACCTTCTCCAGTGACGGAAGATGTCTACTCTGGTGGAGTTGCtttttt
s panTro5.chr21               8787123 172 +  33445071 AGAATCGTGAGGAACTGGGTATACAGCCCAGGTTTGGTATCTTGGCAGAATGGCAGAATCAGACTACCTCAGGTGTCAGCTACTTGATGCCTTGGTCAGGAAGACTGTGGGTCAGCTTCAGTTAACCTTCTCCAGTGACGGAAGATGTCTACTCTGGTGGAGTTGCtttttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22326228 172 +  46275980 AGAATCGTGAGGAACTGGGTATACAGCCCAGGTTTGGTATCTTGGCAGAATGGCAGAATCAGACTACCTCAGGTGTCAGCTACTTGATGCCTTGGTCAGGAAGACTGTGGGTCAGCTTCAGTTAACCTTCTCCAGTGACGGAAGATGTCTACTCTGGTGGAGTTGCtttttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8309493 172 -  13858734 AGAATCGTGAGGAACTGGGTATACAGCCCAGGTTTGGTATCTTGGCAGAATGGCAGAATCAGACTACCTCAGGTGTCAGCTACTTGATGCGTTGGTCAGGAAGACTGTGGGTCAGCTTCAGTTAACCTTCTCCAGTGACGGAAGATGTCTACTCTGGTGGAGTTGCtttttt
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5301517 172 -  13750039 AGAATTGTGAGAAACTGGGTATACAGCCCAGGTTTGGTATCTTGGCAGAACGGCAGAATCAGACTACCTCAGATGTCAGCTACTTGCTGCCCTGGTCAGGAAGACTGTGGGTCAGCTTCAGTTAACCTTCTCCAGTGACAGAAGATGTCTACTCTGGTGGAGTTGCtttttg
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24927055 155 -  38779656 AAAATCACGAAGATCTATGTGTATAGACCCCATTCAGCATCTGG-------TGTAGAAGCCAA----------TGTCAGCTACTTGCCATCCTTGTCAGAAAGACTGTAAATCAGCTTCACTTGAAGATATCCAGTGACAGAAAGTgtcaactctagtggggttgtcttttt
i otoGar3.GL873528          I 18 I 278
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=265001.000000
s hg38.chr21_GL383579v2_alt    175107 316 +    201197 tttttt----------ttcttttgagacagggtctcactgtgtcgcctaggccggaatgcagtggcgcatctcagctcactgcagcctcgacttcctaggataagttgatcctcccacctcagcctccccaaatagctgggactacaggaatgtgccaccacgcccagctagt-tttttgtatttttagtagaaatggggtttcgccttgttggccaggctggtcttgaattcctagactcaaacaatctgcccacctaggcctcccaaagtgctggaattataggtgtgaggcac-gcacacggcTGTGGTTATGttttctttcttt
s panTro5.chr21               8787295 314 +  33445071 tttttt------------cttttgagacagggtctcactgtgtcgcccaggccggaatgcagtggcgcatctcagctcactgcagcctcgacctcctaggataagttgatcctcccacctcagcctccccaaatagctgggactacaggaatgtgccaccacgcccagctagt-tttttgtatttttagtagaaatggggtttcgccttgttggccaggctggtcttgaattcctagactcaagcaatctgcccacctaggcctcccaaagtgctggaattataggtgtgaggcac-gcacacggcTGTGGTTATGttttctttcttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22326400 313 +  46275980 ttttt-------------cttttgagacagggtctcactgtgtcgcccaggccggaatgcagtggcgcatctcagctcactgcagcctcgacctcctaggataagttgatcctcccacctcagcctccccaaatagctgggactacaggaatgtgccaccacgcccagctagt-tttttgtatttttagtagaaatggggtttcgccttgttggccaggctggtcttgaattcctagactcaagcaatctgcccacctaggcctcccaaagtgctggaattataggtatgaggcac-gcacatggcTGTGGTTCTGTTTTCTTCCttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8309665 313 -  13858734 tttttt------------cttttgagacagggtctcactgtgtcgcccaggccggaatgcagtggcgcatctcagctcactgcagccttgacctcctgggataagttgatcctcccacctcagcctccccaaatagctgggactacaggaatgtgccaccacgcccagctagt-tttttgtatttttagtagaaatggggttttgccttgttggccaggctggtcctgaattcctagactcaagcaatctgcccacctaggcctcccaaagtgctggaattataggtgtgaggcac-gcacacggcTGTGGTTATGTtttctt-cttt
i gorGor5.CYUI01015003v1    C 0 C 0
s colAng1.NW_012120598v1      5301689 328 -  13750039 tttttttttgtttttttttttttgagacagagtctcactgtgttgcccaggccaaaatgcagtgacacatctcagctcactgcagcttcgaactcctgggataaggagattctcccacctcagcatccccaaacagctgggactacaggaatgtaccaccacgtccagctagtatttttgtatttttagtagaaacggggcttcaccatgttgaccagcctggtcttgaattcctggactcaagcaatctgcccacctaagcctcccaaagtgctggaattacaggtgtgagtcactgcacacagcTGTGGTTACCTtttctttcttt
i colAng1.NW_012120598v1    C 0 I 6514
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24927210 278 -  38779656 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=76787.000000
s hg38.chr21_GL383579v2_alt    175423 161 +    201197 tcttttcttttcttttttttttttttttatt--gagacagag--tcttgctctgtcgtcaggttggagtggagtggcgagatcttggctcactgcatcctccacctcctgggttcaagtgattctcctgcctcagcctcccaagcagctaggactacaggcgccc
s panTro5.chr21               8787609 154 +  33445071 tcttttcttttcttttttttt-------att--gagacggag--tcttgctctgtcgtcaggttggagtgcagtggcgagatcttggctcactgcatcctccacctcccgggttcaagtgattctcctgcctcagcctcccaagcagctaggactacaggcgccc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22326713 158 +  46275980 tctttttcttttctttttttt-------atttgtagacggaggtctttgctctgtcgtcaggttggagtgcagtggcgagatcttggctcactgcatcctccacctcccgggttcaagtgattctcctgcctcagtctcccaagcagctaggactacaggcgccc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8309978 152 -  13858734 tcttttcttttttttttta---------att--gagacggag--tcttgctctgtcgtcaggttggagtgcagtggcgagatcttggctcactgcatcctccacctcccgggttcaagtgattctcctgcctcagcctcccaagcagctaggactacaggcgccc
i gorGor5.CYUI01015003v1    C 0 I 167
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24927210 278 -  38779656 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=69443.000000
s hg38.chr21_GL383579v2_alt    175584 247 +    201197 accaccacacttggctaattttttgtattttttgtagacacggggtttcactctgttggtcaggctggtctcgaactcctgacctcaagcaatccacccaccttggcctcctaaaatgctgagattacaggtgtcagccactgcacctggcTGGGGTTAccttttctaatgagaaacatgaatccataagtcaatgtccttaaatctagcagcacaggaattggtctacaatacctgatatggtcca
s panTro5.chr21               8787763 247 +  33445071 accaccacacttggctaattttttgtattttttgtagacacagggtttcactctgttggtcaggctggtctcgaactcctgacctcaagcaatccacccgccttggcctcccaaaatgctgagattacaggtgtcagccactgcacctggcTGGGATTAccttttctaatgagaaacatgaatccataagtcaatgtccttaaatctagcagcacaggaattggtctacaatacctgatatggtcca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22326871 247 +  46275980 accaccacacttggctaattttttgtattttttgtagacacagggtttcactctgttggtcaggctggtctcgaactcctgacctcaagcaatccacccgccttggcctcccaaaatgctgagattacaggtgtcagccactgcacctggcTGGGATTAccttttctaatgagaaacatgaatccataagtcaatgtccttaaatctagcagcacaggaattggtctacaatacctgatatggtcca
i panPan2.chr21             C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24927210 278 -  38779656 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e gorGor5.CYUI01015003v1      8310130 167 -  13858734 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=1322555.000000
s hg38.chr21_GL383579v2_alt    175831 2427 +    201197  
s panTro5.chr21               8788010 2414 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22327118 2414 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8310297 2413 -  13858734  
i gorGor5.CYUI01015003v1    I 167 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511  564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789   76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215  326 +  13128814 I
e otoGar3.GL873528           24927210  278 -  38779656 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485    0 +  32716333 C

a score=1414043.000000
s hg38.chr21_GL383579v2_alt    178258 2019 +    201197  
s panTro5.chr21               8790424 2019 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22329532 2019 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8312710 2013 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24927488 1967 -  38779656  
i otoGar3.GL873528          I 278 I 397
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511  564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789   76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215  326 +  13128814 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485    0 +  32716333 C

a score=294539.000000
s hg38.chr21_GL383579v2_alt    180277 528 +    201197  
s panTro5.chr21               8792443 528 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22331551 528 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8314723 528 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e otoGar3.GL873528           24929455 397 -  38779656 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=323048.000000
s hg38.chr21_GL383579v2_alt    180805 451 +    201197 ccctaacaaatgtacattaaccaacttagatttcaagatttgaaaaaatacaggaattgctctcagtataaccttggggcatgatggtccaggtatactggtagtcatctcaagtaaaagcaagtgagtattgactccatgggcctactggaatatcaaaggaaacactgcataaatcaaccatggtatg--------tatatatatacaactttcagtaaggactgctgccaaaagaatatgggcttttggtaccaccagatgtcttgggatcacaatgttcttgacagttctcaaatgttatacaaaagt-------------------------ccagcccctcctgtttggcttccttacagaaaggatcagagtattacattggctggtgcaagaaataattagaccattttaaatatatcttttattatgggtctgattccttcaattgctctaggccttagaggatattgtctggta
s panTro5.chr21               8792971 451 +  33445071 ccctaacaaatgtacgttaaccaacttagatttcaagatttgaaaaaatacaggaattgctctcagtataaccttggggcatgatggtccaggtatactggtagtcatctcaagtaaaagcaagtgagtattgactccatgggcctactggaatatcaaaggaaacactgcataaatcaaccatggtatg--------tatatatatacaactttcagtaaggactgctgccaaaagaatatgggcttttggtaccaccagatgtcttgggatcacaatgttcttgacagttctcaaatattgtacaaaagt-------------------------ccagcccctcctgtttggcttccttacagaaaggatcagagtattacattggctggtgcaagaaataattagaccatttaaaatatatcttttattatgggtctgattccttcaattgctctaggccttagaggatattgtctggta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22332079 451 +  46275980 ccctaacaaatgtacattaaccaacttagatttcaagatttgaaaaaatacaggaattgctctcagtataaccttggggcatgatggtccaggtatactggtagtcatctcaagtaaaagcaagtgagtattgactccatgggcctactggaatatcaaaggaaacactgcataaatcaaccatggtatg--------tatatatatacaactttcagtaaggactgctgccaaaagaatatgggcttttggtaccaccagatgtcttgggatcacaatgttcttgacagttctcaaatattgtacaaaagt-------------------------ccagcccctcctgtttggcttccttacagaaaggatcagagtattacattggctggtgcaagaaataattagaccattttaaatatatcttttattatgggtctgattccttcaattgctctaggccttagaggatattgtctggta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8315251 459 -  13858734 ccctaacaaatgtacattaaccaacttagagttcaagatttgaaaaaatacaggaattgctctcagtataaccttggggcatgatggtccaggtatactggtagtcatctcaagtaaaagcaagtgagtattgactccatgggcctactggaatatcaaaggaaacacagcataaatcaaccatggtatgtatatatatatatatatacaactttcagtaaggactgctgccaaaagaatatgggcttttggtaccaccagatgtcttgggatcacaatgttcttgacagttctcaaatattgtacaaaagt-------------------------ccagcccctcctgtttggcttccttacagaaaggatcagagtattacattggctagtgcaagaaataattagaccattttaaatatatcttttattatgggtctgattccttcaattgctctaggccctagaggatattgtctggta
i gorGor5.CYUI01015003v1    C 0 C 0
s otoGar3.GL873528           24929852 454 -  38779656 ccctgaaaaatgtgcattatgcaaatcagatttcagtaagtgggaaaa-acaggaagggctttc--tgcaaacttgggacatgaaggtccaagtatg-tgatggtgatctcaagtgaagtcaaagaagtactgatgctgtaggtctgccagaatactaaagaaagtgctgca--------------------------aataaatatcttactttcagtagggactggtgtcaaaagagcatgggggtttgatattattatatgtcttgtgatctcagtgttgttgatagctcttaaatcttatacacaattaaaagaaaaaatcttatatatgatgccagccccaaccattcactttccttacaaggaagatcaaaatatcatattggctgctgcaaaaaaaaattagttttttttcatatcgtcttgtattatgtgcctgattctttcaattacttcagaccttagaaaatattgtctgata
i otoGar3.GL873528          I 397 I 8
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I
e nomLeu3.chr25               9330485   0 +  32716333 C

a score=609348.000000
s hg38.chr21_GL383579v2_alt    181256 549 +    201197  
s panTro5.chr21               8793422 549 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22332530 549 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8315710 549 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9330485 549 +  32716333  
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24930314 575 -  38779656  
i otoGar3.GL873528          I 8 I 129
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I

a score=4230.000000
s hg38.chr21_GL383579v2_alt    181805 3 +    201197 TAC
s panTro5.chr21               8793971 3 +  33445071 TAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333079 3 +  46275980 TAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8316259 3 -  13858734 TAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331034 3 +  32716333 TAC
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24931018 3 -  38779656 TAC
i otoGar3.GL873528          I 129 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cerAty1.NW_012002954v1     13524628 6064 +  21915920 I
e macNem1.NW_012015021v1      5012047 6596 -  30496662 I
e macFas5.chr3              167376012 6068 - 192294377 I
e rheMac8.chr3              160741345 6071 - 185818997 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e colAng1.NW_012120598v1      5302017 6514 -  13750039 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I
e chlSab2.chr2               20026005 6071 -  90373283 I

a score=61402.000000
s hg38.chr21_GL383579v2_alt    181808  16 +    201197 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
s panTro5.chr21               8793974  16 +  33445071 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333082  16 +  46275980 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8316262  16 -  13858734 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331037  16 +  32716333 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160747416  16 - 185818997 ------------------------------------------------------------------------------------------------atctttgagaccttag
i rheMac8.chr3              I 6071 I 1
s macFas5.chr3              167382080  16 - 192294377 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
i macFas5.chr3              I 6068 I 1
s macNem1.NW_012015021v1      5018643  16 -  30496662 ------------------------------------------------------------------------------------------------atctttgagaccttag
i macNem1.NW_012015021v1    I 6596 I 1
s cerAty1.NW_012002954v1     13530692  16 +  21915920 ------------------------------------------------------------------------------------------------atctttgagaccatag
i cerAty1.NW_012002954v1    I 6064 I 1
s chlSab2.chr2               20032076  16 -  90373283 ------------------------------------------------------------------------------------------------ATCTTTGAGACCTTAG
i chlSab2.chr2              I 6071 C 0
s colAng1.NW_012120598v1      5308531  16 -  13750039 ------------------------------------------------------------------------------------------------atctttgagaccttag
i colAng1.NW_012120598v1    I 6514 C 0
s otoGar3.GL873528           24931021 112 -  38779656 ACCCATCTAACACCCCTTTGATCATTAGAAGGATGCACATATTTTTTCTTAAAAGGCCTGGTTTGACCAGTCAATTGTTGTAGTTGCAAATTCATAATCTTTGAAGTCTTAG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I
e manLeu1.NW_012103476v1      3544122 6057 +   7543664 I

a score=2321122.000000
s hg38.chr21_GL383579v2_alt    181824 386 +    201197 TTTTTTCTTCTTTCTGAATAGTTTTAGAAAGTTGATCTCCC--ACACTTCCTAAGTTATGGGTTTGTATATCTGCAAAGTTAAGATGGTATTATTTAAATAAGGTAAccaagtcttcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgaccttggaggctagcatcaggcatttcagaatattgtttaa-atgtt--------ttt----------------ttttttcaagctgttcaaaataatccagcacagattcatctggctttttagagcattgattaattctcctcaaagctacattatttggaaaggtctggagaatggcatcacaaagagcctgggc-taaggtgtagacaccttcatggttggcttcagtctttttttaaaacatcc
s panTro5.chr21               8793990 383 +  33445071 TTTTTTCTTCTTTCTGTATAGTTTTAGAAAGTTGATCTCCC--ACACTTCCTAAGTTATGGGTTTGTATATCTGCAAAGTTAAGATGGTATTATTTAAATAAGGTAAccaagtcttcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgaccttggaggctagcatcaggcatttcagaatattgttaaa-at-----------ttt----------------ttttttcaagctgttcagaataatccagcacagattcatctggctttttagagcattgattaattctcctcaaagctacattatttggaaaggtctggagaatggcatcacaaagagcctggac-taaggtgtagacaccttcatggttggcttcagtctgtttttaaaacatcc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333098 383 +  46275980 TTTTTTCTTCTTTCTGAATAGTTTTAGAAAGTTGATCTCCC--ACACTTCCTAAGTTATGGGTTTGTATATCTGCAAAGTTAAGATGGTATTATTTAAATAAGGTAAccaagtcttcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgaccttggaggctagcatcaggcatttcagaatattgtttaa-at-----------ttt----------------ttttttcaagctgttcagaataatccagcacagattcatctggctttttagagcattgattaattctcctcaaagctacattatttggaaaggtctggagaatggcatcacaaagagcctagac-taaggtgtagacaccttcatggttggcttcagtctgtttttaaaacatcc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8316278 384 -  13858734 TTTTTTCTTCTTTCTGAATAGTTTTAGAAAGTTGATCTCCC--ACACTTCCTAAGTTATGGGTTTGTATATCTGCAAAGTTAAGATGGTATTATTTAAATAAGGTAAccaagtcttcatgtaagccattgaagaaagcagaatttataagaaaatcattttgttgaccttggagactagcatcaggcatttcagaatattgtttaa-atgt---------ttt----------------ttttttcaagctgttcaaaataatccagcacagattcatctggctttttagagcattgattaactct-ctcaaagatacattatttggaaaggtctggagaatggcatcacaaagagcctgagc-taaggtatagacaccttcatggttggcttcagtctgtttttaaaacatcc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331053 383 +  32716333 TTTTTTCTTCTTTCTGAATAGTTTTAGAAAGTTGATCTCCC--ACACTTTCTAAGTTATGGGTTTGTATATCTGCAAAGTTAAGACGGTATTATTTAAATAAAGTAAccaagtcttcatgtaagccattgaagaaagcagaattaataagaaaatcattctggtgaccttggaggctagcatcaggcatttcagaatattgtttaa-at-----------gtt----------------ttttttcaagctgttcaaaataatccagcacagattcatctggctttttagagcattgattagttctcctcaaagctacattatttggaaaggtctggagaatggcatcacaaagagcctgggc-taaggtgtagaccccttcatggttggcttcagtctgtttttaaaacatcc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160747433 402 - 185818997 ttttttcttctttctgaatagttttagaaagttgatctcct--acactttctaagtcgtgggtttgtatatctgcaaagttaagatggtattatttaaataagataaccaagtcctcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgatcttggaggctagcatcaggcatttccaaatattgtttaa-atgtg--------tttttttgtttttgttttcttttttcaagctgttcaaaataatcaagcacagatttatctggctttctagagcactgattaattctcctccaagctacattttttggaaaggtctggagagtggcatcacaaagagcctgggc-taaggtgtagaccccttcatggttagcttcagcctgttttttaaaaatcc
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167382097 402 - 192294377 TTTTTTCTTCTTTCTGAATAGTTTTAGAAAGTTGATCTCCT--ACACTTTCTAAGTCGTGGGTTTGTATATCTGCAAAGTTAAGATGGTATTATTTAAATAAGATAACCAAGTCCTCATGTAAGCCATTGAAGAAAGCAGAATTTATAAGAAAATCATTCTGATGATCTTGGAGGCTAGCATCAGGCATTTCCAAATATTGTTTAA-ATGTG--------TTTTTTTGTTTttgttttcttttttcaagctgttcaaaataatcaagcacagatttatctggctttctagagcactgattaattctcctccaagctacattttttggaaaggtctggagagtggcatcacaaagagcctgggc-taaggtgtagaccccttcatggttagcttcagcctgttttttaaaaatcc
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      5018660 403 -  30496662 ttttttcttctttctgaatagttttagaaagttgatctcct--acactttctaagtcgtgggtttgtatatctgcaaagttaagatggtattatttaaataagataaccaagtcctcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgatcttggaggctagcatcaggcatttccaaatattgtttaa-atgtgt-------tttttttgtttttgttttcttttttcaagctgttcaaaataatcaagcacagatttatctggctttctagagcactgattaattctcctccaagctacattttttggaaaggtctggagagtggcatcacaaagagcctgggc-taaggtgtagaccccttcatggttagcttcagcctgttttttaaaaatcc
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13530709 402 +  21915920 tttcttcttctttctgaatagttttagaaagttgatctcct--acactttctaagtcgtgtgtttgtatatctgcaaagttaagatggtattatttaaataagataaccaagtcctcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgatcttggaggctagcatcaggcatttccaaatattgtttaa-atgtg--------tttttttgtttttattttcttttttcaagctgttcaaaataatcaagcacagatttatctggctttctagagcactgattaattctcctccaagctacattttttggaaaggtctggagagtggcatcacaaagagcctgggc-taaggtgtagaccccttcatggttagcttcagcctgttttttaaaaatcc
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               20032092 390 -  90373283 TTTTTTCTTCTTTCTGAATAGTTTTAGAAAGTTTATCTCCC--ACACTTTCTAAGTCGTGAGTTTGTATATCTGCAAAGTTAAGATGGTATTATTTAAATAAGATAAccaagtcctcatgtaagccattgaagaaagcagaatttataagaaaatcattctgatgatcttggaggctagcatcaggcatttccaaatattgtttaa-atgtg--------tttgttt------------ttttttcaagctgttcaaaataatcaagcacaggtttatctggctttctagagcactgattaattctcctccaagttacaatttttggaaaggtctggagaatggcatcacgaagagcctgggc-taaggtgtagaccccttcatggttggcttcagcctgtttttaaaaaatcc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3550179 402 +   7543664 ttttttcttctttctgaatagttttagaaagttgatctcct--acactttctaagtcgtgggtttgtatatctgcaaagttaagatggtattatttaaataagataaccaagtcctcaggtaagccattgaagaaagcagaatttataagaaaatcattctgatgatcttggaagctagcatcaggcatttccaaatattgtttaa-atgtg--------tttttttgtttttgttttcttttttcaagctgttcaaaataatcaagcacagatttatctggctttctagagcactgattaattctcctccaagctacattttttggaaaggtctggagagtggcatcacaaagagcgtgggc-taaggtgtagaccccttcatggttagcttcagcctgttttttaaaaatcc
i manLeu1.NW_012103476v1    I 6057 C 0
s colAng1.NW_012120598v1      5308547 410 -  13750039 ttttttcttctttctgaatagttttggaaagtttatctccc--acactttctaagtcgtgggtttgtatatcggcaaagttaagatggtattatttaaataagataaccaagtcctcatgtaagacattgaagaaagcagaatttataagaaaatcattctgatgatcttggaggctagcatcaggcatttccgaatattgtttaa-atgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtttcaagctgttcaaaataatcaagcacagatttatctggctttctagagcactgattaattctcctccaagctacattttttggaaagatttggagaatggcatcacaaagagcctaggc-taaggtgtagatcccttcatggttggcttcagcctgtttttaaaaaatcc
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24931133 361 -  38779656 TTTCTTCTTCTTTTTGAATAGTTTTAGAAAGTTGATCTTCCGGGCTCTTACTAATTTATGGGTTCACATATTTGTTCCATTAAGCTTGCATATTTTAAGTAAGGTAACCAAATCCTCCATTAAGCCAAT----------GAATTTATATGGAAATCATTCTGATAAT-TTGGTAGCTAGTGTGATCCATTCTGGAGTATTTTTTAAGAT-----------TTT----------------TTTTTTC-------CCAAAATAATCAAG-AAAGA-TCATCTGGCTATTGAGAACA-----GAATTTTCCTTCAGACTATATT-TTTGGAAAGGTCTTAGAAATGGCATCATAAAGAACCTTGGTAAAAAGTATGAGCCCTTCCATGGTGATCTTCAGTCTCCTTTTGAAAAATCC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13981365 1773 -  14377064 I
e canFam3.chr31              18078789  76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I
e calJac3.chr21              26565330 1894 +  50472720 I
e saiBol1.JH378168            8727215 326 +  13128814 I

a score=10745.000000
s hg38.chr21_GL383579v2_alt    182210 2 +    201197 ta
s panTro5.chr21               8794373 2 +  33445071 ta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333481 2 +  46275980 ta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8316662 2 -  13858734 ta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331436 2 +  32716333 tc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160747835 2 - 185818997 tg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167382499 2 - 192294377 tg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5019063 2 -  30496662 tg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13531111 2 +  21915920 tg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20032482 2 -  90373283 tg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3550581 2 +   7543664 tg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5308957 2 -  13750039 tg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26567224 2 +  50472720 tg
i calJac3.chr21             I 1894 C 0
s saiBol1.JH378168            8727541 2 +  13128814 tg
i saiBol1.JH378168          I 326 C 0
s cebCap1.NW_016107322v1     13983138 2 -  14377064 tA
i cebCap1.NW_016107322v1    I 1773 C 0
s otoGar3.GL873528           24931494 2 -  38779656 TC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e canFam3.chr31              18078789 76 +  39895921 I
e aotNan1.NW_018487195v1      9203704 1785 -   9889416 I

a score=4150092.000000
s hg38.chr21_GL383579v2_alt    182212 434 +    201197 tgaggtattgttctaagcttgccattttcaaccattcagtggccctgtcttttgatgccagcgtgtgaactaattgataaaagtcagactatctgtgttcttatgtcctgacaattaaatga-a----------------tt--tttttttttt--------------------ttttttgcaaacactatgggatcttggagaagctctgggaagtcttttatactattcttaagttcagtctttgtccaACGGGTGTGCATAAT---AGGAGGCTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGGGAGATAGAATTGAAGGCAAGTAAGGACA-GGAAAGTTTAGATACAAGAAGATATAAAGGTTCAGGCGTGGGTGgagaaggagcagtggaggtggaagggagaag
s panTro5.chr21               8794375 436 +  33445071 tgaggtattgttctaagcttgccattttcaaccattcagtggccctgtcttttgataccagcatgtgaactaattgataaaagtcagactatctgtgttcttatgtcctgacaattaaatga-a--------------gttt--tttttttttt--------------------ttttttgcaaacactatgggatcttggagaagctctgggaagtcttttatactattcttaagttcagtctttgtccaACGGATGTGCATAAT---AGGAGGCTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCCGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGGGAGGTAGAATTGAAGGCAAGTAAGGACA-GGAAAGTTTAGATAAAAGAAGATATAAAGGTTCAGGCATGGGTGgagaaggagcagtggaggtggaagggagaag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333483 425 +  46275980 tgaggtattgttctaagcttgccattttcaaccattcagtggccctgtcttttgataccagcatgtgaactaattgataaaagtcagactatctgtgttcttatgtcctgacaattaaatga-a----------------tt--tttttttt-----------------------------caaacactatgggatcttggagaagctctgggaagtcttttatactattcttaagttcagtctttgtccAACGGGTGTGCATAAT---AGGAGGCTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGggaggtagaattgaaggcaagtaaggaca-ggaaagtttagataaaagaagatataaaggttcaggcgtgggtggagaaggagcagtggaggtggaagggagaag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8316664 436 -  13858734 tgaggtattggtctaagcttgccattttcaaccattcagtggccctgtcttttgataccagcatgtgaactaattgataaaagtcagactatctgtgttcttatgtcctgacaattaaatga-a--------------tttt--tttttttttt--------------------ttttttgcaaacactatgggatcttggagaagctctgggaagtcttttatactattcttaagttcagtctttgtccAACGGGTGTGCATAAT---AGGAGGCTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGggaggtagaattgaaggcaggtaaggaca-ggaaagtttagataaaagaagatataaaggttcaggcgtgggtggagaaggagcagtggaggtggaagggagaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331438 427 +  32716333 tgaggtattgttctaagcttgccattttcaaccattcagtggccctgtcttttgataccagcatgtgaactaattgataaaagtcagactatctgtgttcataggtcctgacaattaaatga-a----------------tt--tttttttt---------------------------tggaaacactatgggatcttggagaagctctgggaagtcttttatactattcttaatttcagtctttgtccAACGGGTGTGCATAAT---AGGAGGCTCACGTCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGggaggtagaattgaaggcaagtaaggaca-cggaagtttagataaaagaagatataaaggttcaggcgtgggtggagaaggagcagcggaggtggaagggagaag
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160747837 427 - 185818997 cgagatattattctaagcttgccattttcaaccatccagtggctctgtcttttgatatccgcatgtgaactaattgataaaagtcagactatctgtgttcctaggtcctgacaattaaatga-a----------------ag---ttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatattattcttaagttcagtctttgtccaaggaatgtgcataat---gggaggctcacatctttctgcaggttttaccttgaaagggggtgCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTTCTCAGGTGGTC----AGggaggtagaagggaaggcaagtaaggacaggggaagtttagataaaagaagatataaaggttcaggcgtgggaggagaaggagcagtggaggtggaagggagaag
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167382501 427 - 192294377 cgagatattattctaagcttgccattttcaaccatccagtggctctgtcttttgatatccgcatgtgaactaattgataaaagtcagactatctgtgttcctaggtcctgacaattaaatga-a----------------ag---ttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatattattcttaagttcagtctttgtccaaggaatgtgcataat---gggaggctcacatctttctgcaggttttaccttgaaagggggtgcaaaaataggagtttcagaaaggatgtcagagatgtagaaaattttctcaggtggtc----agggaggtagaagggaaggcaagtaaggacaggggaagtttagataaaagaagatataaaggttcaggcgtgggaggagaaggagcagtggaggtggaagggagaag
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5019065 427 -  30496662 cgagatattattctaagcttgccattttcaaccatccagtggctctgtcttttgatatccgcatgtgaactaattgataaaagtcagactatctgtgttcctaggtcctgacaattaaatga-a----------------ag---ttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatattattcttaagttcagtctttgtccaaggaatgtgcataat---gggaggctcacatctttctgcaggttttaccttgaaagggggtgCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTTCTCAGGTGGTC----AGggaggtagaagggaaggcaagtaaggacaggggaggtttagataaaagaagatataaaggttcaggcgtgggaggagaaggagcagtggaggtggaagggagaag
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13531113 427 +  21915920 cgagatattattctaagcttgccattttcaaccatccagtggctctgtcttttgatatctgcatgtgaactaattgataaaagtcagactatctgtgttcctaggtcctgacaattaaatga-a----------------ag---ttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatattattcttaagttcagtctttgtccaaggAATGTGCATAAT---GGGAGGCTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGggaggtagaagggaaggcaagtaaggacaggggaagtttagataaaagaagatataaaggttcaggcgtgggaggagaaggagcagtggaggtggaagggagaag
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20032484 428 -  90373283 cgagatattattctaagcttgccattttcaaccatccagtggctctgtcttttgatatctgcatgtgaactaattaataaaagtcagactatctgtgttcctaggtcctgacaattaaatga-a----------------ag--tttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatactattcttaagctcagtctttgtccaaggaatgtgcataat---gggaggctcacatctttctgcaggttttaccttgaaaggggctgcaaaaataggagtttcagaaaggatgtcagagatgtagaaaatttcctcaggtggtc----agggaggtagaagggaaggcaagtaaggacaggggaagtttagataaaagaagatataaaggttcaggcgtgggaggagaaggagcagtggaggtggaagggagaag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3550583 429 +   7543664 cgagatattattctaagcttgccattttcaaccatccagtggctctgtcttttgatatccgcatgtgaactaattgataaaagtcagactatctgtgttcctaggtcctgacaattaaatgaga----------------gg--tttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatattattcttaagttcagtctttgtccaaggAATGTGCATAAT---GGGAGGCTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGggaggtagaagggaaggcaagtaaggacaggggaagtttagataaaagaagatataaaggttcaggcgtgggaggagaaggagcagtggaggtggaagggagaag
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5308959 430 -  13750039 agagatattgttctaagcttaccattttcaaccattcagtggctctgtcttttgatatccgcatgtgaactaattgataaaagtcagactatctgtgttcctaggtcctgacaattaaatga-a----------------aggttttttttt---------------------------tgcaaacactatgagatcttggagaagccctgggaagtcttttatcctattcttaagttcagtctttgtccaaggAATGTGCATAAT---GGGAGACTCACATCTTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAAAATAGGAGTTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTCAGGTGGTC----AGggaggtagaagggaaggcaagtaaggacaggggaagtttagataaaagaagatataaaggttcaggcgtgggaggagaaagagcagtggaggtggaagggagaag
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26567226 413 +  50472720 TGAGGTATTGTTCTAAGCTTG-CATTTTCAACCATTCAGTGGCCCTGTCTTTTGATACCAGCATGTGAATTAATTGATAAAAGTCAGAATATCTGGGTTCCTAGATCCTGACAATTA------A--------------------------AT---------------------------TGTAAACACTGTGGGATCTTGGAGCAGGTCTCGGAAGTCTTTTATACTATTTTCAAGTTCAGTCGTTGTCCAAGGGGTATGCATAATGGGAGGAGGCTCACATCCTTCTGCAAGTTTTACCTGGAAAGGGGCTGCAAAAATCGGAGTTTCAGAAAGGATGTCAGAGATGTAGGAAATTTTCTACGATGGTC----AGCTGGGTAGAAGGGAAGGCAAGTAAAGACA-GAGAAGTTTAGATAAATGAGGATATTAAAGTTCAGGCATGGGAGGAGAAGGAACAGTGGAGATGGAAAGGAG---
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8727543 429 +  13128814 TGAGATATTGTTCTAAGCTTGCCATTTTCAACCATTCAGTGGCCCTGTCCTTTGATACCAGCATGTGAACTAATTGATAAAAGTCAGAATATCTGGGTTCCTAGGTCCTAACAATTA------A------tttttttttttt--tttttttt---------------------------tGTAAACACTGCTGGATCTTGGAGCAGGTCTCGGAAGTCTTTTATACTATTTTTAAGCTCAGTCTTTGTCCAAGGGGTATGCATAAT---AGGAGGCTCACATATTTCTGCAGGTTTTACCTTGAAAGAGGCTGCAAAAATAGGAATTTCAGAAACGATGTCAGAGATGTAGAAAATTTCCTACGGTGGTC----AGTGGGGTAAAAAGGAAGGCAAATAAAGACA-GAGAAGTTTAGATAAGTGAAGACATAAAGGTTCAGGCATGGAAGGAGAAGGAGCAGTGGAGGTGGAAGGAAG---
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13983140 438 -  14377064 TGAGGTATTGTTCTAAGCttgccattttcaaccattcagtggccctgtcttttgataccagcatgtgaactaattgataaaagtcagaatatctgggttcctaggtcctgacaatta------aataatttttttttttttt--tttttttt---------------------------ggtaaacactgtgggatcttggagcaggtctcggaagccttttatactatttttaagttcagtctttgtccAAGCGGTATGCATAAT---AGGAGGCTCACATATTTCTGCAGGTTTTACCTTGAAAGGGGCTGCAAATATAGGAATTTCAGAAAGGATGTCAGAGATGTAGAAAATTTCCTATGGTGGTC----AGTggggtagaagggaaggcaaataaagaca-gagaagtttagataaatgaagatataaaggttcaggcatggaagaagaaggagcagtggaggtggaagggagaag
i cebCap1.NW_016107322v1    C 0 I 8
s aotNan1.NW_018487195v1      9205489 416 -   9889416 TGAGGTatttttctaagcttgccattttcaaccattcagtggccctgtcttttgataccagcatgtgaactaattgataaaggtcagaatatctggattcctagatcctgaaaatta------t----------------at--atatatat---------------------------aaaaaacactgtgggatcttggagcaggtctcggaagtcttttatactatttttaagttcagtcgttgtccaaggGGTATGCATAAT---AGGAGGCTCACATCCTTCTGCAGGTTTTACCTTGAAAGGGGCGGCAAAAATAGGAGTTTCAGAAAGAATGTCAGAGATGTAGAAAATTTTCTATGGTGGTC----AGCggggtagaagggaaggtaagtaaagaca-gagaagtttagataaatgaagatataaaggttcaggcatgggaggagaaggagcagtggaagggagaag------
i aotNan1.NW_018487195v1    I 1785 C 0
s otoGar3.GL873528           24931496 351 -  38779656 TAAAAGATAATTCTGA-CTTA-TATTTTCAACCATTGTGTGGCCCTGTTTTCTGATACCAGC-----------------------------TCTGAGATCACAAGTTCTAACAATTAAATCA-A----------------TT--TTTGTTTTTGTTGTTGATATTGTTTATATATTTTTTTCAAATGCTGTGAGAACTTGCAGTGACTCTGCAAAGTCGTTTATGATATTCTTAAATTCAGC--------------------TAAA------------------------------------------------------AAGAGTTTCAGGGAGGAAGTCAGAGACCTGGGAAATTTCCTCAAGTGATTGTTGGTGGTAGTAGAAGGG-AGGCAAGTCATAAAA-GGGAAGCTTGGATAGGAGAAAATAAAAAAGTTCAGGAGCAGGAGGAGAATCAGT--TTGAGGTGAAAAGGAGA--
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e canFam3.chr31              18078789  76 +  39895921 I

a score=46266.000000
s hg38.chr21_GL383579v2_alt    182646 16 +    201197 aaggtctcctaagtga
s panTro5.chr21               8794811 13 +  33445071 ---gtctccttagtga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333908 13 +  46275980 ---gtctccttagtga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8317100 13 -  13858734 ---gtctcctaagtga
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331865 10 +  32716333 ---gt---ctaagtga
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160748264 13 - 185818997 ---gcctcctaagtga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167382928 13 - 192294377 ---gcctcctaagtga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5019492 13 -  30496662 ---gcctcctaagtga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13531540 13 +  21915920 ---gcctcctaagtga
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20032912 13 -  90373283 ---gcctcctaggtga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3551012 13 +   7543664 ---gcctcctaagtga
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5309389 13 -  13750039 ---gcctcctaagtga
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26567639 11 +  50472720 AAGGCCTCCAA-----
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8727972 11 +  13128814 AAGGCCTCCAA-----
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9205905  8 -   9889416 ---gcctccaa-----
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24931847 10 -  38779656 --TTCTCTCTAA----
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e cebCap1.NW_016107322v1     13983578  8 -  14377064 I
e canFam3.chr31              18078789 76 +  39895921 I

a score=12928261.000000
s hg38.chr21_GL383579v2_alt    182662 1317 +    201197  
s panTro5.chr21               8794824 1321 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22333921 1320 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8317113 1315 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9331875 1309 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160748277 1308 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167382941 1308 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5019505 1308 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13531553 1309 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20032925 1320 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3551025 1309 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5309402 1320 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26567650 1327 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8727983 1326 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13983586 1325 -  14377064  
i cebCap1.NW_016107322v1    I 8 C 0
s aotNan1.NW_018487195v1      9205913 1333 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24931857 1277 -  38779656  
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511  564 +   3081153 I
e canFam3.chr31              18078789   76 +  39895921 I

a score=1774193.000000
s hg38.chr21_GL383579v2_alt    183979 192 +    201197 gtttaatggactcacagtaccacatagct--------agggaggcctcgcaatcatggtggaaggcaaaggagaagcaaaggcacatcttacatggtggcagtcaagagagcatatgtaggagaaccctcatttataaaaccatcagatctcatgagacgtattcactaccacgagaacaggtatgggggaaatcgcccc
s panTro5.chr21               8796145 192 +  33445071 gtttaatggactcacagtaccacatagct--------agggaggcctcgcaatcatggtggaaggcaaaggagaagcaaaggcacatcttacatggtggcagtcaagagagcatatgtaggagaaccctcatttataaaaccatcagatctcatgagacgtattcactaccacgagaacaggtatgggggaaatcgcccc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22335241 192 +  46275980 gtttaatggactcacagtaccacatagct--------agggaggcctcgcaatcatggtggaaggcaaaggagaagcaaaggcacatcttacatggtggcaggcaagagagcatatgtaggagaaccctcatttataaaaccatcagatctcatgagacgtattcactaccacgagaacaggtatgggggaaatcgcccc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8318428 191 -  13858734 gtttaatggactcacagtaccacatagct--------agggaggcctcgcaatcatggtggaaggcaaaggagaagcaaaagcacatcttacatggtggcaggcaagagagcatatgtaggagaaccctcatttataaaaccatcagatctcatgagacgtattcactaccacgagaacaggtatggggaaaatcg-ccc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9333184 192 +  32716333 gtttaatggactcacagttccacatagct--------agggaggcctcacaatcgtggtggaaggcaaaggagaagcaaaggcacatcttacatggcagcaggcaagacagcatatgtaggagaaccctcatttataaaaccatcagatctcatgagacttattcactaccacgagaacaggtatgggggaaatcgcccc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160749585 191 - 185818997 gtttagtggactcacagttccacatggct--------agggaggcctcgcaatcatgatggaaggcaaaggagaagcaaaggcacatcttacatggtgggaggcaagagagcatatgtaggagaaccc-catttataaaaccatcagatcttgtgagacttattcactaccacgagaacaggtatgggggaaattgcccc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167384249 191 - 192294377 gtttagtggactcacagttccacatggct--------agggaggcctcgcaatcatgatggaaggcaaaggagaagcaaaggcacatcttacatggtgggaggcaagagagcatatgtaggagaaccc-catttataaaaccatcagatctcgtgagacttattcactaccacgagaacaggtatgggggaaattgcccc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5020813 191 -  30496662 gtttagtggactcacagttccacatggct--------agggaggcctcgcaatcatgatggaaggcaaaggagaagcaaaggcacatcttacatggtgggaagcaagagagcatatgtaggagaatcc-catttataaaaccatcagatctcgtgagacttattcactaccacgagaacaggtatgggggaaattgcccc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13532862 191 +  21915920 gtttagtggactcacagttccacatggct--------agggaggcctcgcaatcatgatggaaggcaaaggagaagcaaaggcacatcttacatggtgggaggcaagagagcatatgtaggcgaaccc-catttataaaaccatcagatctcgtgagacttatttactaccatgagaacaggtatgggggaaattgcccc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20034245 191 -  90373283 gtttagtggactcacagttccacatggct--------agggaggcctcacaatcatgatggaaggcaaaggagaagcaaaggcacatcttacatggtggcaggcaagagagcatatgtaggagaaccc-catttataaaaccatcagatctcgtgagacttattcactaccacgagaacaggtatgggggaaattgcccc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3552334 191 +   7543664 gtttagtggactcacagttccacatggct--------agggaggcctcgcaatcatgatggaaggcaaaggagaagcaaaggcacatcttacatggtgggaggcaagagagcatatgtaggagaaccc-catttataaaaccatcagatctcctgagacttattcactaccacgagaacaggtatgggggaaattgcccc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5310722 191 -  13750039 gtttagtggactcacagttccacatggct--------agggaggcctcaaaatcatgatggaaggcaaagaagaagcaaaggcacatcttacatggtggcaggcaagagagcatatgtaggagaaccc-catttataaaaccatcagatctcgtgagacttattcactaccacgagaacaggtacaggggaaatcgcccc
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26568977 198 +  50472720 atgtaatgtattcacagttccacaaggctggggtggggggggggcttcacaatcatggtggaaggcaaaggagaaaaaaagacatatcttacatggtggcaggcaagagatcgtatgtaggagaacactcatttataaaaccatgagatctcataagacttattcagtaccacgagaacc-gtatgggag-aattgttcc
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8729309 187 +  13128814 atgtaatggattcacagttccacaaggct--------agggagtcttcacaatcatggtggaaggcgaaggagaagcaaagacttatcttacatggtggcggacaagagatcatatgt---cgaacactcatttataaaaccatcagatcttgtaagatttatccactaccgcgagaaca-gtatgggag-aattgttcc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13984911 187 -  14377064 atgtaatggattcacagttccacagggct--------agggagacttcacaatcatcgtggaaggcaaaggagaagcaaagacatatcttacatggtggcaggcaagagatcatatgt---cgagcacttatgtataaaaccatcagatctcgtaagacttattcactaccacaagaaca-gtatgggag-aattgttcc
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9207246 190 -   9889416 atgtaatggattcacagttccacatggct--------agggaggcttcacaatcatggcggaaggcaaaggagaagcaaagacatatcttacatgatggcaggcaagagatcatatgttggagaacattcatttataaaaccatgagatctcataagacttattcactaccatgagaaca-gtatgggag-aatagttcc
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e canFam3.chr31              18078789  76 +  39895921 I
e otoGar3.GL873528           24933134   0 -  38779656 C

a score=4397938.000000
s hg38.chr21_GL383579v2_alt    184171 448 +    201197 catgattcaattgtctccacctggttctgcccttgagctttgggtggggacacagccaaaccataacaccttgtgaagtgcatttttcagcttttgttacaagcatgttttt-----aaagaaagcagggaaagaagtggactgaaacaaggttgtttgtcagaaattatcattggtttacagaaataacattaattagtgattgactatacattgttgaac----atagggtatgaattatggtgtcca-gta--tgcagcattgttagattaatttctagcaacttgtggcatcagcctagagcccac-atagcaagcagcttctggagatgaatacttaactcaaggcaagggagcaaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccatttctcagat--aagtttcctttcttCCTCATTTTGGAGCTTGT
s panTro5.chr21               8796337 448 +  33445071 catgattcaattatctccacctggctctgcccttgagctttgggtggggacacagccaaaccataacaccttgtgaagtgcatttttcagcttttgttacaagcatgttttt-----aaagaaagcagggaaagaagtggactgaaacaaggttgtttgtcagaaattatcattggtttacagaaataacattaattagtgattgactatacattgttgaac----atagggtatgaattatggtgtcca-gta--tgcagcattgttagattaatttctagcaacttgtggcatcagcctagagcccac-atagcaagcagcttctggagatgattacttaactcaaggcaagggagcaaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccatttctcagaa--aagtttcctttcttCCTCATATTGGAGCTTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22335433 444 +  46275980 catgattcaattatctccacctggctctgcccttgagctttgggtggggacacagccaaaccgtaacaccttgtgaagtgcatttttcagcttttgttacaagcatgttttt-----aaagaaagcagggaaagaagtggactgaaacaagg----ttgtcagaaattatcattggtttacagaaataacattaattagtgattgactatacattgttgaac----atagggtatgaattatggtgtcca-gta--tgcagcattgttagattaatttctagcaacttgtggcatcagcctagagcccac-atagcaagcagcttctggagatgattacttaactcaaggcaagggagcaaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccatttctcagaa--aagtttcctttcttCCTCATATTGGAGCTTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8318619 431 -  13858734 catgattcaattatctccacctggctctgcccttgagctttgggtggggacacagccaaaccataacaccttgtgaagtgcatttttcagcttttgttacaagcatgttttt-----aaagaaagcagggaaagaagtggactgaaacaaggttgtttgtcagaaattatcattggtttacagaaata-----------------actatacattgttgaac----atagggtatgaattatggtgtcca-gta--tgcagcattgttagattaatttctagcaacttgtggcatcagcctagagcccac-atagcaagcagcttctggagatgattacttaactcaaggcaagggagcaaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccatttctcagat--aagtttcctttcttCCTCATATTGGAGCTTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9333376 453 +  32716333 catgattcaattatctccacctggccctgcccttgagctttgggtggggacacagccaaaccataacaccttgtgaagtgcattgttcagcttttgttacaagcaggtttttaaag-aaagaaagcagggaaagaagtggactgaaataaggttgtttgtcagaaattatcattggtttacagaaataacattaattagtgattggctatacattgttgacc----atagggtatgaattatggtgtcca-gta--tgcagcattgttagattaatttctagcaacttgtggcatcagtctagagcccacaatagcaagcagcttctggagatgattacttaactcaaggcaagggggcgaaacatggctgttgtctcattccagtgcctgtctggatctgatgatttaaa---ggctcccatttctcagat--aagtttcctttcttCCTCATATTGGGGCATGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160749776 446 - 185818997 catgattcaattatctccacctggccctgctcttgagctatgagtggggacacagccaaaccatatcaccttgtgaagtacgttgttcagcttctgctacaagcaattttttgaag-aaagaaagggggaaaataagtggattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcattgttagattaatttctagcaacttgtggcatcagcctggagcccac-atagcaagcagcttccagagatgattacttagctcaaggcaagggagccaaacatggctgttgtctcatttcagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATTGGAGCATGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167384440 446 - 192294377 catgattcaattatctccacctggccctgctcttgagctatgagtggggacacagccaaaccatatcaccttgtgaagtacgttgttcagcttctgctacaagcaattttttgaag-aaagaaagggggaaaataagtggattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcattgttagattaatttctagcaacttgtggcatcagcctggagcccac-atagcaagcagcttccagagatgattacttagctcaaggcaagggagccaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATTGGAGCATGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5021004 446 -  30496662 catgattcaattatctccacctggccctgctcttgagctatgagtggggacacagccaaaccatatcaccttgtgaagtacgttgttcagcttctgctacaaacaattttttgaag-aaagaaagggggaaaataagtggattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcattgttagattaatttctagcaacttgtggcatcagcctggagcccac-atagcaagcagcttccagagatgattacttagctcaaggcaagggagccaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATTGGAGCATGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13533053 446 +  21915920 catgattcaattatctccacctggccctgctcttgagctatgggtggggacacagccaaaccatatcaccttgtgaagtacgttgttcagcttctgctacaagcaattttttgaag-aaagaaagggggaaaataagtggattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcattgttagattaatttctagcaacttgtggcatcagcctggagcccac-atagcaagcagcttccagagatgattacttagctcaaggcaagggagccaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATTGGAGCATGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20034436 442 -  90373283 catgattcaattatctccacctggccctactcttgagctaggagtggggacacagccaaaccatatcaccttgtgaagtacgttgttcagcttctgttacaagcaattttttg-----aagaaagggggaaaataagtagattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcattgttagattaatttctagcaacttgtggcatcagcctggagcccac-atagcaagcagcttccagggatgattacttagctcaaggcaagggagccaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATTGGAGCATGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3552525 446 +   7543664 catgattcaattatctccacctggccctgctcttgagctatgagtggggacacagccaaaccatatcaccttgtgaagtacgttgttcagcttctgctacaagcaattttttgaag-aaagaaagggggaaaataagtggattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcactgttagattaatttctagcaacttgtggcatcaacctggagcccac-acaccaagcagcttccagagatgattacttagctcaaggcaagggagccaaacatggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATTGGAGCATGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5310913 446 -  13750039 catgattcaattatctccacctggccctgctcttgagctatgggtggggacacagccaaaccatatcaccttgtgaagtacattgttcagcttctgttacaagcagttttttgaag-gaagaaacggggaaaataagcggattgaaataaagttgtttgtcagaaattctcattggtttacagaaataacattaattagtg-------atacactgttgaact---atagggtatgaattatggtgttca-gca--tgcagcattgttagattaatttctagcaacttgtggcatcagcctggagcccac-atagcaagcagcttccagagatgattacttagctcaaggcaagggagccaaacgtggctgttgtctcattccagtgcctgtctggatctgataatttaaa---ggctcccttttctcagat--aagtttcctttcttCTTCATATCGGAGCATGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26569175 454 +  50472720 catgattcaattatctccacctggccccacacttgagatttgggtgaggatacagccaaaccatatcaACTTGTGAACTGAATTGTTCAGTTTTTgttacaagcagatttttaaagtaaaaaaacggggaaaggaagtggactgaaataaggttgtttgtcagtaattctcattggtttacagaaataacattaattagtgattggctatacattgttgaact---ataggctatgaattatggtgacca-gca--tacagcattgtcagataaatttatagcaacttgtggcatcactttagagcccaa-agagcaaccagcttcaggaggtgattacttagctcaaggtaagggagtgaaacatggctgttgtccgattccggcgcctgcctggatctgataatttaaa---ggctcctgttccttagat--aagcttcctttcttCCTCATATTGGAGCATGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8729496 453 +  13128814 catgattcaattttctccatctggccccacccctgagatttgggtaaggacacagccaaaccatatcaacttgtaaactgaattgttcagcttttgttacaagcaagtttttaaag-aaaaaatgggcggaaagaagtcgactgaaataaggttgtttgttagtgattctcattggtttacagaaataacattaattagtgattgactatacattattgaact---ataggctatgaattatggtgaata-gca--tacagcattgctagataaatttacagcaacctgtggcatcagtttagagcccac-atagcaaccagcttcaagagatgattacttagctcaaggcaagggagtgaaacatggctgttgtctgattgcagtgcctgtctggatctgataatttaaa---ggcttctatttcttagat--aagcttcctttcttCCTCATATTGGAGCATGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13985098 454 -  14377064 catgattcaattatctccatctggccccacccttgagatttgggtgaggacacagccaaaccatatcaACTTGTGAAATGAATTGTTCAGCTTTTgttacaagcaggtttttaaggaaaaaaatgggggaaaagaagtggactgaaatgaggttgtttgtcagtaattctcattggtttacagaaataacattaattagtgattgactatacattgttgagct---ataggctatgaattatggtggcca-gca--tacagcattgttagataaatttatagcaacttgtggcatcagtttagagcccac-atagcaaccagcttcaagagatgattacttagctcaaggcaagggagtgaaacatggttgttgtctgattccagtgcctgttgggatctgataatttaaa---ggctcctatttcttagat--aagcttcctttcttCCTCATATTGAAGCATGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9207436 453 -   9889416 catgattcaattctctccacctggcctcacccttgagatttgggtgaggacacagccaaaccatatcaACTTGTGAGCTAAATTGTTCAGCTTTTgttacaagcaggtttttaaag-aaaagaatggggaaaagaagtggactgaaataaggttgtttgtcagaaattctcattggtttacagaaataacattaattagtgattggctatacattgttgaact---ataggctatgaattacggtgacca-gca--tacagcattgttagataaatttatagcaacttgtggcatcactttagagcccac-atagcagccagcttcaagagatgattacttagctcaaggcaagggagtgaaacatggctgttgtctgattccagtgcctgtctggatctgataatttaaa---ggctcctattccttagat--aagcttcctttcttCCTCATATTGGAGCATGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24933134 373 -  38779656 CTTGATTCGATTGTGTC--------------------------------------------------------------------------------tataagcaggtttttaatc-acaaaaaggaggaccagaaatggactgatgcaaacttatttgtcaggaattctcattggtttagataaataacattgattagtgattggttgtatactgttgaactgtagtagagtatcagccaggggatctatgcaggtggggcattattaggttaatttataac----tgtgatatctg------gtcctt-acagaatccaccttgaagtgatgactgcttagttaaagg-aagaaggttggacgtgactgctgtatcctccccatgtccctctgaatctggtcacttaaaaagggcttgcatttctcagatgaaaatttattttatttctcaTGTTAAAATATAT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e dasNov3.JH578070            2495511 564 +   3081153 I
e canFam3.chr31              18078789  76 +  39895921 I

a score=2105837.000000
s hg38.chr21_GL383579v2_alt    184619 187 +    201197 TGCCTTTTAATAACTTAATTCCCAGTAACAATACAGAATGAAACAGCTGAGCACAATGTGAGAAATAATCTACAACAGTTTTTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAGATCATGCTGTTAGCTAATATTAGACTTGCAAGAAAGTATCCTTTTCTGAT
s panTro5.chr21               8796785 187 +  33445071 TGCCTTTTAATAACTTAATTCCCAGTAACATTACAGAATGAAACAGCTGAGCACAATGTGAGAAATAATCTACAACAGTTTTTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAGATCATGCTGTTAGCTAATATTAGACTTGCAAGAAAGTATCCTTTTCCGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22335877 187 +  46275980 TGCCTTTTAATAACTTAATTCCCGGTAACGTTACAGAATGAAACAGCTGAGCACAATGTGAGAAATAATCTACAACAGTTTTTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAGATCATGCTGTTAGCTAATATTAGACTTGCAAGAAAGTATCCTTTTCCGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8319050 187 -  13858734 TGCCTTTTAATAACTTAATTCCCAGTAACATTACAGAATGAAACAGCTGAGCACAATGTGAGAAATAATCTACAACAGTTTTTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAGATCATGCTGTTAGCTAATATTAGACTTGCAAGAAAGTATCCTTTTCCGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9333829 173 +  32716333 TGCCTTTTAATAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAGCACAATGTGAGAAATAA--------------TCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAGATCATGCTGTTAGCTAATATTAGACTTGCAAGAAACTATCCTTTTCCGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160750222 187 - 185818997 TGCCTTTTAACAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAACACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATATAAAAATTTACTTGCTAAAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCTTTTTCCGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167384886 187 - 192294377 TGCCTTTTAACAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAACACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATATAAAAATTTACTTGCTAAAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCTTTTTCCGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5021450 187 -  30496662 TGCCTTTTAACAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAACACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATATAAAAATTTACTTGCTAAAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCTTTTTCCGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13533499 187 +  21915920 TGCCTTTTAATAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAACACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATATAAAAATTTACTTGCTAAAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCTTTTTCCGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20034878 187 -  90373283 TGCCTTTTAATAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAGCACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCCTTTTCCAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3552971 187 +   7543664 TGCCTTTTAATAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAACACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATATAAAAATTTACTTGCTATAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCTTTTTCCGAT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5311359 187 -  13750039 TGCCTTTTAATAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAGCACAATCTGAGAAATAATCTACAACAGTTTCTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTGCTAAAAATCATGCTGTTAGCTAATATTAGACTTGTAAGAAACTATCCTTTTCCGAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26569629 187 +  50472720 TGCCTTTTCATAACTTGATTCCCAGTAGCGCTGCAGAACGGAACAGCTGAGAACGATCTAAGAAATAATCTACAACAGGTTTTCTTCATGTAGGTGGGAAATAAACCTCAAAGAATACAAAAATTTACTTATTAAAGATTCTGTTGTTAGCTAATATTAGACTTGTAAGAAACTATCCTTTTCTGAC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8729949 186 +  13128814 TGCCTTTTAATAACTTAATTCCCAGtagcattacagaatgcaacagctgagaacaatctgagaaacaatctacaacaggttttcttcatgtagatgagaaagaaacctcaaagcatacaaaaatttacttattaaagatagtgttgttagctaatattagacttgtaaggacctat-cttttctgat
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13985552 187 -  14377064 TGCCTTTTAATAACTTAATTCCCAGTAGCATTACAGAATGGAACAGCTGAAAACAATCTGAGAAATAATCTACAACAGGTTTTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAAAATTTACTTATTAAAGATAGCATTGTTCGCTAATATTAGACTTGTAAGGAACTATCCTTTTCTGAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9207889 187 -   9889416 TGCCTTTTAATAACTTAATTCTCAGTAGCATTACAGAATGGAACAGCTGAGAACAATCTGAGAAATAATCTACAACAGGTTTTCTTCATGTAGATGAGAAAGAAACCTCAAAGAATACAAACATTTACTTATTAAAGATCGTGTTGTTAGCTAATATTAGACTCGTAAGAAACTATTCTTTTCTGAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24933507 173 -  38779656 TTCCTTTTAATAACTTAATTATGAGTAGAATTACAGGATGGGGAAGC-AAACACAACCTGAGAAATAATTTAGAATAGT---TCTTCACGCAGAAGAGAAAGAAAACTCAAGGAA----------TTCCTGGCAAAGATCCCACTGCCGGTCAAGAACATTGTTGTAAGAAACCCTGCTTTTGTAAT
i otoGar3.GL873528          C 0 I 1311
s dasNov3.JH578070            2496075 185 +   3081153 TGTCTTTTATTAACTTTATTACCAGTGGCACTacagtatgttagatctgaacaggatctgaaaaataatctagaaaaactcctcttaatgtagttgagagaacagactcagagaatacaaaaattgctttgtcaaagatcacactaacagttaatgttacacttgtgaaaaactgt--ttctctgat
i dasNov3.JH578070          I 564 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e canFam3.chr31              18078789  76 +  39895921 I

a score=276111.000000
s hg38.chr21_GL383579v2_alt    184806 27 +    201197 ATCAATTTTGATGATTTC----TTA-AACAGT---
s panTro5.chr21               8796972 27 +  33445071 ATCAATTTTGATGATTTC----TTA-AACAGT---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336064 27 +  46275980 ATCAATTTTGATGATTTC----TTA-AACAGT---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8319237 27 -  13858734 ATCAATTTTGATGATTTC----TTA-AACAGT---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334002 27 +  32716333 ATCAATTTTGATGATTTC----TTA-AACAGT---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160750409 27 - 185818997 ATCAATTTTGATGATTTC----TTA-AGCAGT---
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385073 27 - 192294377 ATCAATTTTGATGATTTC----TTA-AACAGT---
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5021637 27 -  30496662 ATCAATTTTGATGATTTC----TTA-AACAGT---
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13533686 27 +  21915920 ATCAATTTTGATGATTTC----TTA-AACAGT---
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035065 27 -  90373283 ATCAATTTTGATGATTTC----TTA-AACAGT---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3553158 27 +   7543664 ATCAATTTTGATGATTTC----TTA-AACAGT---
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5311546 27 -  13750039 ATCAATTTTGATGATTTC----TTA-AACAGT---
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26569816 27 +  50472720 ATCAATTTTGGTGATTTC----TTA-AACAAT---
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730135 31 +  13128814 atcacttttggtgatttcttagtta-agcagt---
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13985739 27 -  14377064 ATCAATTTTGGTGATTTC----TTA-AACAGT---
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208076 31 -   9889416 ATCAATTTTGGTGATTTCTTAGTTA-AACAAT---
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2496260 31 +   3081153 ttcaattttggtgtttcc----tTATTTCGGTAAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e canFam3.chr31              18078789 76 +  39895921 I
e otoGar3.GL873528           24933680 1311 -  38779656 I

a score=262025.000000
s hg38.chr21_GL383579v2_alt    184833 25 +    201197 CTGACTACCTGCTGCATAAAACCTC
s panTro5.chr21               8796999 25 +  33445071 CTGACTACCTGCTGCATAAAACCTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336091 25 +  46275980 CTGACTACCTGCTGCATAAAACCTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8319264 25 -  13858734 CTGACTACCTGCTGCATAAAACCTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334029 23 +  32716333 CTGACTGCCTGCTGCATAAAACC--
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160750436 25 - 185818997 CTGACTACTTGCTGCATAAAACTTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385100 25 - 192294377 CTGACTACTTGCTGCATAAAACTTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5021664 25 -  30496662 CTGACTACTTGCTGCATAAAACTTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13533713 25 +  21915920 CTGACTACTTGCTGCATAAAACTTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035092 25 -  90373283 CTGACTACTTGCTGCATAAAACTTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3553185 25 +   7543664 CTGACTACTTGCTGCATAAAACTTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5311573 25 -  13750039 CTGACTACTTGCTGCATAAAACCTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26569843 25 +  50472720 CTGACTACCTGCTGCACAAAACCTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730166 24 +  13128814 ctgATTA-CTGCTGCATAAAACCTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13985766 24 -  14377064 CTGATTA-CTGCTGCATAAAACCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208107 24 -   9889416 CTGACTA-CTGCTGCATAAAACCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24934991 25 -  38779656 CTGCCTTCACGCTCCATCCGACCTC
i otoGar3.GL873528          I 1311 C 0
s dasNov3.JH578070            2496291 25 +   3081153 CTGTCTACCTGCTACATCAGACTTC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I
e canFam3.chr31              18078789 76 +  39895921 I

a score=1463831.000000
s hg38.chr21_GL383579v2_alt    184858 178 +    201197 TT---CTTCTAC--TTTTTTAATTACATATTTATC-TTTTCTGC-CACTTCTCTAGTTTACCGTCTTTTTTTACTTTTAACAACTAAGCAAAACAATATGTTTAACT--TGTCAAAGAAGACTTTGACAACTAAAGATACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
s panTro5.chr21               8797024 178 +  33445071 TT---CTTCTAC--TTTTTTTATTACATATTTATC-TTTTCTGC-CACTTCTCTAGTTTACCGTCTTTTTTTACTTTTAACAACTAAGCAAAACAATATGTTTAACT--TGTCAAAGAAGACTTTGACAACTAAAGATACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336116 178 +  46275980 TT---CTTCTAC--TTTTTTTATTACATATTTATC-TTTTCTGC-CACTTCTCTAGTTTACCGTCTTTTTTTACTTTTAACAACTAAGCAAAACAATATGTTTAACT--TGTCAAAGAAGACTTTGACAACTAAAGATACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8319289 178 -  13858734 TT---CTTCTAC--TTTTTTTATTACATATTTATC-TTTTCTGT-CACTTCTCTAGTTTACCGTCTTTTTTTACTTTTAACAACTAAGCAAAACAATATGTTTAACT--TGTCAAAGAAGACTTTGACAACTAAAGATACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334052 177 +  32716333 -T---CTTCTAC--TTTTTTTATTACATATTTATC-TTTTCTGC-CACTTACCTAGTTTACCGTCTTTTTTTACTTTTAACAACTAAGCAAAACAATATGTTTAACT--TGTCAAAGAAGACTTTGACAACTAAAGATACAATACTGTTTCTTTGA---CTT----------CTGATGACTACTCTAATAAATGTACACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160750461 176 - 185818997 TTGCCCTTTTAC--TTTTTTTATGACATATTTATC-TTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAATATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGACACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385125 176 - 192294377 TTGCCCTTTTAC--TTTTTTTATGACATATTTATC-TTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAATATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGACACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5021689 176 -  30496662 TTGCCCTTTTAC--TTTTTTTATGACATATTTATC-TTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAATATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGACACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13533738 177 +  21915920 TTGCCCTTTTAC-TTTTTTTTATGACATATTTATC-TTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAATATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGACACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035117 176 -  90373283 TTGTCCTTTTAC--TTTTTTTATGACATATTTATC-TTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAATATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGATACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3553210 176 +   7543664 TTGCCCTTTTAC--TATTTTTATGACATATTTATC-TTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAATATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGACACAATACTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5311598 176 -  13750039 TTGTCCTTTTAC--TTTTTTTATGACATATTCATCTTTTTCTGC-CAGTTCTCTAGTTTACCGTCCTTTTTTACTATTAACAATTAAGCAAAAAAA-ATGTTTAACT--TGTCAAAGAAGACTTTGAC-----AAGATACAATAGTGTTTCTTTGA---CTT----------CTGATGACTCCTCTAATAAATGTACACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26569868 119 +  50472720 TTCT------------------TTGCATATTTATC-TTTCCTGT-CACTTCTCTAGTTTAC------------------------------------------------TGTCAAATAAGACTTTGACAAGTAAAGATACGGTACACTTTCTTTGA---CTT----------CTGATGACTCCTCCAATAAATGTACACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730190 129 +  13128814 TTCTTCTTTTAC-TTCTTTGTATTACATATTTATC-TTTTCTGT-CACTTCTCTAGTTTAC------------------------------------------------TGTCAAAGAAGACTTTGAC-----AAGATACA--ATACTTTCTTTGA---CTG----------CTGATGACTCCTCCAATAAATGTACATA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13985790 141 -  14377064 TTCTTCTTTTAC-TTCTTTGTATTACATATTTGTT-TTTCCTGT-CACTTCTCTAGTTTAC------------------------------------------------TGTCAAAGAAGACTTTGAC-----AAGATATAATACTCTTTCTTTGA---CTTCTGATGACGCCTGATGACTCCTCCAATAAATGTACATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208131 146 -   9889416 TTCTTCTTTTAC-TTCTTTGTATCACATATTTATC-TTTCCTGT-CACTTCTCTAGTTTGC------------------------------------------------ATTCAAAGAAGACTTTGACAAGTAAAGATACAATACACTTTCTTTGA---CTTCTGATGACTCCTGATGACTCCTCCAATAAATGTACACA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24935016 156 -  38779656 TT---CTCTTAACTTCTTTTAAAACCGTATTTATC-TGTTTTAC-TATGTCTGTAGTACATTGTCC-TTTTTACAATTAATAATTAAGCAAAAA---ATGTTTATTT--TGTCAAAGTCAA----------------------ACTGCTTTTTTGATC-CTT----------TTGATGACTTATCCAATAAGAGCACATA
i otoGar3.GL873528          C 0 I 3
s canFam3.chr31              18078865 154 +  39895921 ---TTCTTTTAT-TTCCTTTTAGCACAAATTTATC-TCTTCTACACACATCTCCAGGTAAC---TCGTTTCTACTGTTAAAAATTATGCAAAATTATTTACTTAGTC--TCT--------------------------ACAACAGTGTTTCTTTGA---TCT-------TCTCTGATAACTTGGGTGATAAAGATACACA
i canFam3.chr31             I 76 I 1
s dasNov3.JH578070            2496316 178 +   3081153 ---TTCCTCTCT--TCCTTTTAGTGCCTATTTATC-TTTTCCGCCCTCTTCTTTAGTTTACTGTCT-ACTTTACTACTAACGATTAATCAAGA--ATTGATTTAACTCAGGTTAATGTAAGTTCTGCTGT---AAGTTAGAATACTGCTTCTTTGATCTCTT----------CTGATAACTCTTCCAATAAGCCTACACT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23746592 4855 +  47401472 I

a score=8447597.000000
s hg38.chr21_GL383579v2_alt    185036 557 +    201197  
s panTro5.chr21               8797202 557 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336294 557 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8319467 557 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334229 557 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160750637 557 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385301 557 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5021865 557 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13533915 557 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035293 557 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3553386 557 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5311774 557 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26569987 555 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730319 557 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13985931 557 -  14377064  
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208277 557 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23751447 557 +  47401472  
i micMur3.chr31             I 4855 I 417
s otoGar3.GL873528           24935175 569 -  38779656  
i otoGar3.GL873528          I 3 C 0
s canFam3.chr31              18079020 556 +  39895921  
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2496494 519 +   3081153  
i dasNov3.JH578070          C 0 C 0

a score=535909.000000
s hg38.chr21_GL383579v2_alt    185593 48 +    201197 TTTATTGGCCTTCTGTGTC----TATTAAATGA-----TTTTTTCTGTGGGAAAATG
s panTro5.chr21               8797759 48 +  33445071 TTTATTGGCCTTCTGTGTG----TATTAAATGA-----TTTTTTCTGTGGGAAAATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336851 48 +  46275980 TTTATTGGCCTTCTGTGTG----TATTAAATGA-----TTTTTTCTGTGGGAAAATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320024 48 -  13858734 TTTATTGGCCTTCTGTGTG----TATTAAATGA-----TTTTTTCTGTGGGAAAATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334786 49 +  32716333 TTTATTGGCCTTCTGTGTG----TATTAAATGA----TTTTTTTCTGTGGGAAAATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751194 48 - 185818997 TTTATTGGCCTTCTCTGTG----TATTAAATGA-----TTTTTTCTGTAGGAAAATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385858 48 - 192294377 TTTATTGGCCTTCTCTGTG----TATTAAATGA-----TTTTTTCTGTAGGAAAATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022422 48 -  30496662 TTTATTGGCCTTCTCTGTG----TATTAAATGA-----TTTTTTCTGTAGGAAAATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534472 48 +  21915920 TTTATTGGCCTTCTCTGTG----TATTAAATGA-----TTTTTTCTGTAGGAAAATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035850 48 -  90373283 TTTATTGGCCTTCTCTGTG----TATTAAATGA-----TTTTTTCTGTAGGAAAATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3553943 48 +   7543664 TTTATTGGCCTTCTCTGTG----TATTAAATGA-----TTTTTTCTGTAGGAAAATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312331 50 -  13750039 CTTATTGGCCTTCTCTGTG----TATTAAATGA---TTTTTTTTCTGTAGGAAAATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26570542 50 +  50472720 TTTATTGGCCTTCTGTGTG----TATTAAATGA---TTTTTTTTCTGTAGGAAAATG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730876 51 +  13128814 TTTATTGGCCTTTTGTGTG----TATTAAATGA--TTTTTTTTTCTGTAGGAAAATG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986488 51 -  14377064 TTTATTGGCCTTCTGTGTG----CATTAAATGA--TTTTTTTTTCTGTAGGAAAGTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208834 53 -   9889416 TTTATTGGCCTTCTGTGTG----TATTAAATGATTTTTTTTTTTCTGTAGGAAAATG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24935744 48 -  38779656 TTTAGTAGCTTTATGTGTA----TATAAAATTA-----TTTTTTCCATAGTAAGTTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079576 51 +  39895921 TTCACTGACCTTCTGTCTGTCTATATCAGATTT----TTTTTCTCAGTAGCAATG--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497013 46 +   3081153 TTTATTGGCCTTCTGTATA-----AATAAATTT-----TTTCTTCTGTTAGCAATG-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752004 417 +  47401472 I

a score=388381.000000
s hg38.chr21_GL383579v2_alt    185641 27 +    201197 TCTGATAAGAAAAATACATATTTTAAA
s panTro5.chr21               8797807 27 +  33445071 TCTGATAAGAAAAATACATATTTTAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336899 27 +  46275980 TCTGATAAGAAAAATACATATTTTAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320072 27 -  13858734 TCTGATAAGAAAAATACATATTTTAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334835 27 +  32716333 TCTGATAAGAAAAATACATATTTTAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751242 27 - 185818997 TCTGATAAGAAAAATACATATTTTAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385906 27 - 192294377 TCTGATAAGAAAAATACATATTTTAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022470 27 -  30496662 TCTGATAAGAAAAATACATATTTTAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534520 27 +  21915920 TCTGATAAGAAAAATACATATTTTAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035898 24 -  90373283 TCTGATAAG---GATACATATTTTAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3553991 27 +   7543664 TCTGATAAGAAAAATACATATTTTAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312381 27 -  13750039 TCTGATAAGAAAAATACATATTTTAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26570592 26 +  50472720 TCTGATAAGaaaaatatatattttaa-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730927 26 +  13128814 TCTGATAAGAAAAATATGTATTTTAA-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986539 27 -  14377064 TCTGATAAGAAAAATACATATTTTAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208887 27 -   9889416 TCTGATAAGAAAAATATATATTTTAAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752421 27 +  47401472 TCTGATAAGAAAAATACATATTTTAAA
i micMur3.chr31             I 417 I 155
s otoGar3.GL873528           24935792 27 -  38779656 TCTGATAAGAAAAATACATATTTTAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079627 24 +  39895921 TCTGCTAAG---AATGCATATTTTTAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497059 27 +   3081153 TCAAATAGGAAGAATGCATATTTAAAA
i dasNov3.JH578070          C 0 C 0

a score=1231537.000000
s hg38.chr21_GL383579v2_alt    185668 124 +    201197 ATAATAAGATATCATAACTAAAGAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTATAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAAATGACTG
s panTro5.chr21               8797834 122 +  33445071 ATAATAAG--ATCCTAACTAAAGAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTATAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAAATGACTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22336926 124 +  46275980 ATAATAAGATATCATAACTAAAGAACTGGAAAGTATAATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTATAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAAATGACTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320099 123 -  13858734 ATAGTAAGATATCATAACTAAAGAACTGG-AAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTATAAACTGGCTCA----AAAATGTATCTTAATG-AATTTATGGTTTTAAATGACTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334862 123 +  32716333 ATAATAAGATATCATAACTAAAGAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTATAAACTGGCTCA----AAAATGTATCTTAATG-AA-TTGTGGTTTTAAATGACCG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751269 124 - 185818997 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTCCTTTTCTATGAAATTTTCTTTAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAATGAATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167385933 124 - 192294377 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTTTAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAATGAATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022497 124 -  30496662 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTTTAAACTGGCTCA----AAAATATATCTTAATG-AATTTGTGGTTTTAATGAATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534547 124 +  21915920 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATTTTCTTTAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAATGAATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20035922 124 -  90373283 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTATGAAATATTCTTTAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAATGAATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554018 124 +   7543664 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTCTTCTATGAAATTTTCTTTAAACTGGCTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTAATGAATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312408 124 -  13750039 ATAATAAGATATCATAACTAAACAACTGGAAAGTATCATAT-GAAATA-ACCTTTTCTTTTCTACAAAATTTTCTTTAAACTGGCTCA----AAAATGTATCTGAATG-AATGTGTGGTTTTAATGAATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26570618 120 +  50472720 --aataaGATATCATAACTAAAGATCTGGAAAGTATCAAAT-TAAATA-GCCTTT--TTTTCTATGAACTTATCTATAAACGGGTTCA----AAAATGGATCTTTCTGCCATATGT-ATTTTCAATTACTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8730953 122 +  13128814 --AATAATAAGATATAACTAAAGAACTGGAAAGTATCGAAT-GAAATA-GCCTTTTCTTTTCTATAAAACTATCTATAAACTGTTTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTCAGTTACTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986566 125 -  14377064 ATAATAAGATATCATAACTAAAGAATTGGAAAGTATCGAATAGAAATA-GCCTTTTCTTTTCTATGAAATTATCTATAAACTGGTTCA----AAAATGTATCTTAATG-AATTTGTGATTTTCAATTACTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9208914 124 -   9889416 ATAATAAGATATCATAACTAAAGAATTGGAAAGTATCGAAT-GAAATA-GCCTTTTCATTTCTATGAAATTATCTATAAACTGGTTCA----AAAATGTATCTTAATG-AATTTGTGGTTTTCAGTTACTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24935819 115 -  38779656 CTGATAAGG------AATTGAGGAAATGTGAAGTATCACAT-GAAATA-AATTTT-----TCTATGAAATCTT-TATAAACTAGTTCA-AAGAAAATGTATACTGATG-AACTTTTTGTTTTAAGGAACTG
i otoGar3.GL873528          C 0 I 114
s canFam3.chr31              18079651 113 +  39895921 GTGATAAGACATCGTAACAAAGGGACTACAAAGTATCACCA-----------------TTTCTATATAATTCTTTCTATAAAGGTTCACAAAAAACTTAATTGTGACA-CATTTCTTGTTTTAAATGACTG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497086 121 +   3081153 ATGATAAGATATTGTAACTTAGCA-CTACAAAGTATCACAT-GAAATGTGTTTTCTATATTTCAAAGAAACTACAGAAAACTA--TTA----AATATATATATTGATG-AATTTTTAG-GTTAAGTGATTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752448 155 +  47401472 I

a score=121967.000000
s hg38.chr21_GL383579v2_alt    185792 18 +    201197 ATATTCACACTTCTTGTA
s panTro5.chr21               8797956 18 +  33445071 ATATTCACACTTCTCATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337050 18 +  46275980 ATATTCACACTTCTCATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320222 18 -  13858734 ATATTCACACTTCTCGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9334985 18 +  32716333 ATGTTCACACTTCTCGTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751393 17 - 185818997 GTGGT-ACACTTCTCGTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386057 17 - 192294377 GTGGT-ACACTTCTCGTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022621 17 -  30496662 GTGGT-ACACTTCTCGTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534671 17 +  21915920 GTGGT-ACACTTCTCGTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036046 17 -  90373283 GTGGT-ACACTTCTCGTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554142 17 +   7543664 GTGGT-ACACTTCTCGTA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312532 17 -  13750039 GTGGT-ACACTTCTCGTA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26570738 18 +  50472720 ATGCTCAGACTTTTTGTA
i calJac3.chr21             C 0 I 17
s saiBol1.JH378168            8731075 18 +  13128814 ATGCTCAGACTTCTTGTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986691 18 -  14377064 ATGCTCAGACTTCTTGCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209038 18 -   9889416 ATGCTCAGACTTCTTGTT
i aotNan1.NW_018487195v1    C 0 I 1
s otoGar3.GL873528           24936048 18 -  38779656 ATGTTGACAATTCTTGGA
i otoGar3.GL873528          I 114 C 0
s canFam3.chr31              18079764 14 +  39895921 ---TTCATATTTCCTCA-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497207 18 +   3081153 ATGTTCATATTTCTTATG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752448 155 +  47401472 I

a score=125986.000000
s hg38.chr21_GL383579v2_alt    185810 13 +    201197 CCAGAAAATCATG
s panTro5.chr21               8797974 13 +  33445071 CCAGAAAATCATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337068 13 +  46275980 CCAGAAAATCATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320240 13 -  13858734 CCAGAAAATCATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335003 13 +  32716333 TCAGAAAATCATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751410 13 - 185818997 CCAGAAAATCTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386074 13 - 192294377 CCAGAAAATCTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022638 13 -  30496662 CCAGAAAATCTTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534688 13 +  21915920 CCAGAAAATCTTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036063 13 -  90373283 CCAGAAAATCTTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554159 13 +   7543664 CCAGAAAATCTTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312549 13 -  13750039 CCAGAAAATCTTG
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8731093 13 +  13128814 TCAGAAAATCACG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986709 13 -  14377064 TCAGAAAATCATG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209057 13 -   9889416 TCAGAAAATCATG
i aotNan1.NW_018487195v1    I 1 C 0
s otoGar3.GL873528           24936066 13 -  38779656 CTAGAAAATTATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079778 13 +  39895921 CCAGGAAATAAAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497225  9 +   3081153 CAAGAAAAA----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752448 155 +  47401472 I
e calJac3.chr21              26570756 17 +  50472720 I

a score=154543.000000
s hg38.chr21_GL383579v2_alt    185823 14 +    201197 TATAAGAAAATGTC
s panTro5.chr21               8797987 14 +  33445071 TATAAGAAAATGTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337081 14 +  46275980 TATAAGAAAATGTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320253 14 -  13858734 TATAAGAAAATGTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335016 14 +  32716333 TATAATAAAATGCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751423 14 - 185818997 TATAATAAAATGCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386087 14 - 192294377 TATAATAAAATGCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022651 14 -  30496662 TATAATAAAATGCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534701 14 +  21915920 TATAATAAAATGCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036076 14 -  90373283 TATAATAAAATGCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554172 14 +   7543664 TATAATAAAATGCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312562 14 -  13750039 TATAATAAAATGCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26570773 13 +  50472720 TATAATAAAATGT-
i calJac3.chr21             I 17 C 0
s saiBol1.JH378168            8731106 14 +  13128814 TATAATAAACTGTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986722 14 -  14377064 TATAATAAAATGTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209070 14 -   9889416 CATAATAAAATGTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24936079 14 -  38779656 TTTAATACAATATC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079791 13 +  39895921 -AATATAGAATACT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497234 14 +   3081153 TATGATAAAATGCC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752448 155 +  47401472 I

a score=416777.000000
s hg38.chr21_GL383579v2_alt    185837 31 +    201197 CTCCAAAGTTGCATTGTTTTCTTTTCCTAGA
s panTro5.chr21               8798001 31 +  33445071 CTCCAAAGTTGCATTGTTTTATTTTCCTAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337095 31 +  46275980 CTCCAAAGTTGCATTGTTTTATTTTCCTAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320267 31 -  13858734 CTCCAAAGTTGCATTGTTTTCTTTTCCTAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335030 31 +  32716333 CTCCAAAGTTACATTGTTTTCTTTTCCTAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751437 31 - 185818997 CTCCAAAGTTGCATTATTTTCTTTTCCTAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386101 31 - 192294377 CTCCAAAGTTGCATTATTTTCTTTTCCTAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022665 31 -  30496662 CTCCAAAGTTGCATTATTTTCTTTTCCTAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534715 31 +  21915920 CTCCAAAGTTGCATTATTTTCTTTTCCTAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036090 31 -  90373283 CTCCAAAGTTGCATTGTTTTCTTTTCCTAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554186 31 +   7543664 CTCCAAAGTTGCATTATTTTCCTTTCTTAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312576 31 -  13750039 CTCCAAAGTTGCATTGTTTTCTTTTCCTACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26570786 26 +  50472720 CTCCAAAG-TGCA-TGTTCTC---TCCTAGA
i calJac3.chr21             C 0 M 638
s saiBol1.JH378168            8731120 30 +  13128814 CTCCAAAGTTGCATTGTTTTCTTTTCCTAG-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986736 31 -  14377064 CTCCAAAGTTGCATTGTTTTCTTTTCCTAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209084 31 -   9889416 CTCCAAAGTTGCATTGTTTTCTCTTCCTAGA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752603 31 +  47401472 CTCCAAAGTTGCACTGTTTCCTTTTCATAGA
i micMur3.chr31             I 155 C 0
s otoGar3.GL873528           24936093 31 -  38779656 CTCCAAAGTCACATTATCTTTTTTTCATAGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079804 31 +  39895921 TCCCAAAGTTTCATTGTTTTtttttttttaa
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2497248 31 +   3081153 TTCCAAATTTGCATTGTTTACTTTTTTTGGA
i dasNov3.JH578070          C 0 C 0

a score=29988.000000
s hg38.chr21_GL383579v2_alt    185868 3 +    201197 ACT
s panTro5.chr21               8798032 3 +  33445071 ACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337126 3 +  46275980 ACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320298 3 -  13858734 ACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335061 3 +  32716333 ACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751468 3 - 185818997 ACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386132 3 - 192294377 ACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022696 3 -  30496662 ACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534746 3 +  21915920 ACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036121 3 -  90373283 ACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554217 3 +   7543664 ACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312607 3 -  13750039 ACT
i colAng1.NW_012120598v1    C 0 C 0
s cebCap1.NW_016107322v1     13986767 3 -  14377064 ACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209115 3 -   9889416 ACT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752634 3 +  47401472 ACT
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24936124 3 -  38779656 ACT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079836 2 +  39895921 at-
i canFam3.chr31             I 1 I 101
s dasNov3.JH578070            2497279 3 +   3081153 GCT
i dasNov3.JH578070          C 0 C 0
e calJac3.chr21              26570812 638 +  50472720 M
e saiBol1.JH378168            8731150 0 +  13128814 C

a score=479341.000000
s hg38.chr21_GL383579v2_alt    185871  50 +    201197 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAGAAAA-CACTGATGTTGTCTACAGCAATTATC
s panTro5.chr21               8798035  50 +  33445071 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAGAAAA-CACTGATGTTGTCTACAGCAATTATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337129  50 +  46275980 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAGAAAA-CACTGATGTTGTCTACAGCAATTATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320301  50 -  13858734 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAGAAAA-CACTGATGTTGTCTACAGCAATTATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335064  50 +  32716333 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAGAAAA-CACTGATGTTGTCTACAGCAATTATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751471  51 - 185818997 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAAAAAACCACTGATATTGTCTACAGCAATTATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386135  51 - 192294377 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAAAAAACCACTGATATTGTCTACAGCAATTATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022699  51 -  30496662 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAAAAAACCACTGATATTGTCTACAGCAATTATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534749  51 +  21915920 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAAAAAACCACTGATATTGTCTACAGCAATTATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036124  51 -  90373283 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAAAAAACCACTGATATTGTCTACAGCAATTATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554220  51 +   7543664 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAAAAAACCACTGATATTGTCTACAGCAATTATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312610  50 -  13750039 GGCTAGAT----------------------------------------------------------------------------------------------------AAAAATATCCAGAAAA-CACTGATGTTGTTTACAGCAATTATC
i colAng1.NW_012120598v1    C 0 C 0
s saiBol1.JH378168            8731150  40 +  13128814 --------------------------------------------------------------------------------------------------------------AAATATCCAGAAAA-CACTGGTGTCGTCTACAGCAATTACC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986770  50 -  14377064 GGCTAGAT----------------------------------------------------------------------------------------------------TAAAATATCCAGAAAA-CACTGGTGTTGTCTACAGCAATTATC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209118  50 -   9889416 GGCTAGAT----------------------------------------------------------------------------------------------------TAAAATATCCAGAAAA-CACTGGTGTCGTCTTCAGCAATTTTC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752637  50 +  47401472 GGCTACAT----------------------------------------------------------------------------------------------------TGAAACAACCAGAAAA-CACTGGTATAGTCCACAGTTATTATC
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24936127  47 -  38779656 GACTAAAT----------------------------------------------------------------------------------------------------TAAAACAACCAGAAGG-CATTAATGTAGTTTTAAG---TTATC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18079939 150 +  39895921 ggcttgattccaggaccccggaatcatgacctgagccaaaggtggatgtttaatcaactgagccacccaggcaccAAGTCATTTTTTTTTTCTTTTTACAGCACTGGCAAGAGCATCCAGAAAA-CACTGGTATAGCTCATTGCTATTAAC
i canFam3.chr31             I 101 I 1
s dasNov3.JH578070            2497282  49 +   3081153 GGATAAAT----------------------------------------------------------------------------------------------------TAAGACATCCTAAAA--TAATAATGTAACCTACAGCTATTCTC
i dasNov3.JH578070          C 0 C 0
e calJac3.chr21              26570812 638 +  50472720 M

a score=503319.000000
s hg38.chr21_GL383579v2_alt    185921 39 +    201197 AATTATTAACATATCACGACTAGAAGCCAA-CTGTAAGAA
s panTro5.chr21               8798085 39 +  33445071 AATTATTAACATACCATGACTAGAAGCCAA-CTGTAAGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337179 39 +  46275980 AATTATTAACATACCATGACTAGAAGCCAA-CTGTAAGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320351 39 -  13858734 AATTATTAACATATCACGACTAGAAGCCAA-CTGTAAGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335114 39 +  32716333 AATTATCAACATATCACACCTAGAAACCAA-CTGTAAGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751522 39 - 185818997 AATTATCAACATATCATGACTAGAAACCAA-CTGTAAGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386186 39 - 192294377 AATTATCAACATATCATGACTAGAAACCAA-CTGTAAGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022750 39 -  30496662 AATTATCAACATATCATGACTAGAAACCTA-CTGTAAGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534800 39 +  21915920 AATTATCAACATATCATGACTAGAAACCAA-CTGTAAGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036175 39 -  90373283 AATTATCAACATATCATGACTAGAAACCAA-CTGTAAGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3554271 39 +   7543664 AATTATCAACATATCATGACTAGAAACCAA-CTGTAAGAA
i manLeu1.NW_012103476v1    C 0 I 1170
s colAng1.NW_012120598v1      5312660 39 -  13750039 AATTATCAACATATCACGACTAGAAACTAA-CTGTAACAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571450 39 +  50472720 AATTATCAACATATCATGACTACAGACCGT-CTGTAAGAA
i calJac3.chr21             M 638 C 0
s saiBol1.JH378168            8731190 36 +  13128814 AATTATCAAAATATCATGACTACAGACCGT-CTGT---AA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986820 39 -  14377064 AATTATCAAAATATCATGACTATAGACTGT-CTGTAAGAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209168 39 -   9889416 AATTATCAACATATCGTGACTACAGACTGT-CTGTAAGAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752687 39 +  47401472 CATTATCAATATATCATGACTAGAGGACAA-CTGTAAGAA
i micMur3.chr31             C 0 I 1
s otoGar3.GL873528           24936174 39 -  38779656 CATTATCAATATATCATGATAAGAGGCCAA-CTGTAAGAA
i otoGar3.GL873528          C 0 I 3
s canFam3.chr31              18080090 39 +  39895921 ATTTATCAACATATCATGACTATAGTCCCA-CTATAAGAA
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2497331 40 +   3081153 AATTATCAACAAATCATGACAGCAGGTCAAGTTATAAGAA
i dasNov3.JH578070          C 0 C 0

a score=839940.000000
s hg38.chr21_GL383579v2_alt    185960 71 +    201197 GACTAAACTGATTTTTA-AAAATAATTTTACA-TTTTCCTTATTTGACACCAAA----T-----AATAAACCACT-CATATTT
s panTro5.chr21               8798124 71 +  33445071 GACTAAACTGATTTTTA-AAAATAATTTTACA-TTTTCCTTATTTGACACCAAA----T-----AATAAACCACT-CATATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337218 71 +  46275980 GACTAAACTGATTTTTA-AAAATAACTTTACA-TTTTCCTTATTTGACACCAAA----T-----AATAAACCACT-CATATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320390 71 -  13858734 GACTAAACTGATTTTTA-AAAATAATTTTACA-TTTTCCTTATTTGACACCAAA----T-----AATAAACCACT-CATATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335153 71 +  32716333 GACTAAACTGATTTTTA-AAAATAATTTTACA-TTTTCCTTATTTGACACCAAA----T-----AACAAACCACT-CATATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751561 67 - 185818997 GACTAAACTTATTTTTA-AAAAGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACCACT-CATATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167386225 67 - 192294377 GACTAAACTTATTTTTA-AAATGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACCACT-CATATTT
i macFas5.chr3              C 0 I 15869
s macNem1.NW_012015021v1      5022789 67 -  30496662 GACTAAACTTATTTTTA-AAAAGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACCACT-CATATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534839 67 +  21915920 GACTAAACTTATATTTA-AAAAGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACTACT-CATATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036214 67 -  90373283 GACTAAACTTATTTTTA-AAAAGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACCACT-CATATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555480 67 +   7543664 gaCTAAACTTATTTTTA-AAAAGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACCACT-CATATTT
i manLeu1.NW_012103476v1    I 1170 C 0
s colAng1.NW_012120598v1      5312699 67 -  13750039 GACTAAACTTTTTTTTA-AAAAGAATTTTACA-TTTTCC----TTGACACCAAA----T-----AATAAACCACT-CATATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571489 71 +  50472720 GACTAAGCTGACTTTTA-AAAATAATTTTACATTTTTCT-TACTTGACACCAAA----T-----AATAAACCACT-TACATTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731226 70 +  13128814 GACTAAGCTGATTTTTA-AAAAGAATTTTACA-TTTTCT-TATTTGACACCAAA----T-----AATAAACCACT-TACATTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986859 69 -  14377064 GACTAAGCTGATTTTT--AAAAGAATTTTACA-TTTTCT-TAGTTGACACCAAA----T-----AATAAACCACT-TACATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209207 70 -   9889416 GACTAAGCTGATTTTTA-AAGAGAATTTTACA-TTGTCT-TAGTTGACACCAAC----T-----AATAAACCACT-TACATTT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752727 70 +  47401472 -----AGTAGGCTTTTA-AAAAGAATTTTACA-TGTTCCTTATTTGACATCAAATATTT-----AATAAACCACT-CATATTT
i micMur3.chr31             I 1 C 0
s otoGar3.GL873528           24936216 76 -  38779656 GACTTAGCTGATTTTTA-AAAACAAATTTACA-TTTTCCTTATTTGACACTAAATACTT-----AATAAATCACTCCGTATTT
i otoGar3.GL873528          I 3 C 0
s canFam3.chr31              18080129 77 +  39895921 ATCCAAATTGACTTTTACAAAAAAAACTTACA-TTTTCCTTATCTGAAAGTGTA----TGCTTAAAAAAACCACT-CATATTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497371 74 +   3081153 TATTGAACTTATTTTT--AAAACAACTTTACA-TTTTCCTTATTTGATACTGAATACTT-----AATGAGCTACA-CATATTT
i dasNov3.JH578070          C 0 C 0

a score=212191.000000
s hg38.chr21_GL383579v2_alt    186031 17 +    201197 ATAACCTGGTCTCCATT
s panTro5.chr21               8798195 17 +  33445071 ATAACCTGGTCTCCATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337289 17 +  46275980 ATAACCTGGTCTCCATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320461 17 -  13858734 ATAACCTGGTCTCCATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335224 17 +  32716333 ATAACCTGGTCTCCATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751628 17 - 185818997 ATAACCTGGTTTCCATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402161 17 - 192294377 ATAACCTGGTTTCCATT
i macFas5.chr3              I 15869 C 0
s macNem1.NW_012015021v1      5022856 17 -  30496662 ATAACCTGGTTTCCATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534906 17 +  21915920 ATAACCTGGTTTCCATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036281 17 -  90373283 ATAACCTGGTTTCCATT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555547 17 +   7543664 ATAACCTGGTTTCCATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312766 17 -  13750039 ATAACCTGGTCTCCATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571560 17 +  50472720 ATAACCTGGTCTCCATT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731296 17 +  13128814 ATAACCTGGTCTCCATT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986928 17 -  14377064 ATAACCTGGCCTCCATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209277 17 -   9889416 ATAACCTGGTCTCCATT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752797 17 +  47401472 ATAACCAGTTCTCCATT
i micMur3.chr31             C 0 I 93
s otoGar3.GL873528           24936292 17 -  38779656 GTAACCAGTTTTCCTTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18080206  7 +  39895921 ATAACCA----------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497445 17 +   3081153 AGTACCAACTCCCCATG
i dasNov3.JH578070          C 0 C 0

a score=589052.000000
s hg38.chr21_GL383579v2_alt    186048 55 +    201197 GGTATATTTTCATGTTCTGTC---------AATTATTTAAATTTCTA-TG-TGTTTACTAGGGTTT
s panTro5.chr21               8798212 55 +  33445071 GGTATATTTTCATGTTCTGTC---------AATTATTTAAATTTCTA-TG-TGTTTACTAGGGTTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337306 55 +  46275980 GGTATATTTTCATGTTCTGTC---------AATTATTTAAATTTCTA-TG-TGTTTACTAGGGTTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320478 55 -  13858734 GGTATATTTTCATGTTCTGTC---------AATTATTTAAATTTCTA-TG-TGTTTACTAGGGTTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335241 55 +  32716333 CGTATATGTTCATGTTCTGTC---------AATTATTTAAATTTCTA-TG-TGTTTGCTAGGGTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751645 56 - 185818997 GGTATATTTTCACGTTTTGTC---------ATTTATTTAAATTTCTG-TGCTGTTTGCTAGAGTTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402178 55 - 192294377 GGTATATTTTCACGTTTTGTC---------CATTATTTAAATTTCTG-TG-TGTTTGCTAGAGTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022873 55 -  30496662 GGTATATTTTCACGTTTTGTC---------CATTATTTAAATTTCTG-TG-TGTTTGCTAGAGTTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534923 55 +  21915920 GGTATATTTTTACGTTTTGTC---------CATTATTTAAATTTCTG-TG-TGTTTGCTAGAGTTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036298 55 -  90373283 GGTATATTTTCACGTTTTGTC---------CATTATTTAAATTTCTG-TG-TGTTTGCTAGAGTTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555564 55 +   7543664 GGTATATTTTCACATTTTGTC---------CATTATTTAAATTTCTG-TG-TGTTTGCTGGAGTTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312783 64 -  13750039 GGTATATTTTCACGTTTTGTCGATTATTTTGATTATTTAAATTTCTG-TG-TGTTTGCTAGAGTTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571577 55 +  50472720 GGTATACATTCATGTTCTGTT---------GATTATTTAAATTTCTA-CG-TGTTTGCTAGGGTTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731313 55 +  13128814 GGTATATATTCATGTTCTGTC---------AATTATTTAAATTTCTA-CG-TGTTTGCTAGGGTTG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13986945 55 -  14377064 GGTATATATTCATGTTCTATC---------AATTATTTAAATTTCTA-CA-TGTTTGCTAGGGTTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209294 55 -   9889416 GGTATATATTCATGTTCTGTC---------AATTATTTAAATTTCTA-CG-TGTTTGCTAGGGTTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24936309 56 -  38779656 AGCATAGGATTGTGTTCTGTC---------AATTATTCAGACTTGCGTTG-TGTTTGCAAGCTATG
i otoGar3.GL873528          C 0 I 439
s canFam3.chr31              18080213 56 +  39895921 GGCATATCATTATGTGCTGTT---------AAATATTCAAATTTCTATTG-TGTTTCTTAGCTATG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497462 56 +   3081153 GACATATTGATATATTCTACC---------AATTGTTCAAATTTCTATTG-TGCTTTCTAGTTGTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752814 93 +  47401472 I

a score=550274.000000
s hg38.chr21_GL383579v2_alt    186103 52 +    201197 GTGGTGTCAGTTCTTCTTCTTCTGCCATAAGAA-TAATAAGGGGATCTTAAGC
s panTro5.chr21               8798267 52 +  33445071 GTGGTGTCAGTTCTTCTTCTTCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337361 52 +  46275980 GTGGTGTCAGTTCTTCTTCTTCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320533 52 -  13858734 GTGGTGTCAGTTCTTCTTCTTCTACCATAAGAA-TAATAAGGGGATCTTAAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335296 52 +  32716333 GTGGTGTCAATTCTTCTTCCTCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160751701 51 - 185818997 -TGGTGTCAA-TCTTTTTCATCTGCCATAAGAAGTAATAAGGGGATCTTAAGA
i rheMac8.chr3              C 0 I 9684
s macFas5.chr3              167402233 52 - 192294377 GTGGTGTCAATTCTTTTTCATCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022928 52 -  30496662 GTGGTGTCAATTCTTTTTCATCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13534978 52 +  21915920 GTGGTGTCAATTCTTTTTAATCTGCCGTAAGAA-TAATAAGGGGATCTTAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036353 52 -  90373283 GTGGTGTCAATTCTTTTTCATCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555619 52 +   7543664 GTGGTGTCAATTCTTTTTCATCTGCCGTAAGAA-TAATAAGGGGATCTTAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312847 52 -  13750039 GCGGTGTCAATTCTTTTTCATCTGCCATAAGAA-TAATAAGGGGATCTTAAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571632 52 +  50472720 GTGGTGTCTATTCTTTTTCCTCTACAATTAGAA-TGATAAGGGAATCTTAAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731368 52 +  13128814 ATGGTGTCTATTCTTTTTCCTCTACCATAAGAA-TAATAAGGGGATCTTAAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987000 52 -  14377064 GTGGTGACTATTCTTTTTCCTCTACCATAAGAA-TAATAAGGGGATCTTAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209349 52 -   9889416 GTGGTGTCTATTCTTTTTCCTCTACCATAAGAA-TAATAAGAGGATCTTAAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24936804 50 -  38779656 GTGGTGTCAATATTTTTTC--CTGTCATAATAA-CAATAAAGAGATCCCGAGA
i otoGar3.GL873528          I 439 I 1
s canFam3.chr31              18080269 48 +  39895921 GTGATGTCTAAGTTTTTCAGTCT----TATGAA-TAAGAAGAGAATTTTGATA
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2497518 31 +   3081153 GTGATGTC---------------GTCATAAAAA-T------GCGACCCAGAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752814 93 +  47401472 I

a score=19971.000000
s hg38.chr21_GL383579v2_alt    186155 4 +    201197 -GTCC
s panTro5.chr21               8798319 4 +  33445071 -GTCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337413 4 +  46275980 -GTCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320585 4 -  13858734 -GTCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335348 4 +  32716333 -GTCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761436 4 - 185818997 -GTCC
i rheMac8.chr3              I 9684 C 0
s macFas5.chr3              167402285 4 - 192294377 -GTCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022980 4 -  30496662 -GTCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535030 4 +  21915920 -GTCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036405 4 -  90373283 -GTCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555671 4 +   7543664 -GTCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312899 4 -  13750039 -GTCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571684 4 +  50472720 -GTCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731420 4 +  13128814 -ATCC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987052 4 -  14377064 -CTCC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209401 4 -   9889416 -GTCC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24936855 3 -  38779656 -GAC-
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18080319 2 +  39895921 -AT--
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2497549 4 +   3081153 GGAC-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23752814 93 +  47401472 I

a score=1165962.000000
s hg38.chr21_GL383579v2_alt    186159 94 +    201197 CTGAATGTTAGAATTTGAT-TGTGTT---ATAATGAGGAGAACCAGGAACAAATTGCCATTTTAATGTATCAACTGGG-AAAAACACAGATGGGACTCT
s panTro5.chr21               8798323 94 +  33445071 CTGAATGTTAGAATTTGAT-TGTGTT---ATAATGAGGAGAACCAGGAACAAATTGCCATTTTAATGTATCAACTGGG-AAAAACACAGATGGGACTCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337417 94 +  46275980 CTGAATGTTAGAATTTGAT-TGTGTT---ATAATGAGGAGAACCAGGAACAAATTGCCATTTTAATGTATCAACTGGG-AAAAACACAGATGGGACTCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320589 94 -  13858734 CTGAATGTTAGAATTTGAT-TGTGTT---GTAATGAGGAGAACCAGGAACAAATTGCCATTTTAATGTATCAACTGGG-AAAAACACAGATGGGACTCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335352 94 +  32716333 CTGAATGTTAGAATTTGAT-TGTGTT---ATAATGAGGAGAACCAGGAACAAATTGCCATTTTAATATATCAACTGGG-AAAAACACAGATGGGACTCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761440 94 - 185818997 CTGAATGTTAGATTTTGAT-TGTATT---ATAATGAGGAGAACCAGGAACAAATTGCTATTTTAACATATCAACTGGG-AAAAACACAGATGGGACTCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402289 94 - 192294377 CTGAATGTTAGAATTTGAT-TGTATT---ATAATGAGGAGAACCAGGAACAAATTGCTATTTTAACATATCAACTGGG-AAAAACACAGATGGGACTCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5022984 94 -  30496662 CTGAATGTTAGAATTTGAT-TGTATT---ATAATGAGGAGAACCAGGAACAAATTGCTATTTTAACATATCAACTGGG-AAAAACACAGATGGGACTCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535034 94 +  21915920 CTGAATGTTAGAATTTGAT-TGTATT---ATAATGAAGAGAACCAGGAACAAATTGCTATTTTAACATATAAACTGGG-AAAAACACAGATGGGACTCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036409 94 -  90373283 CTGAATGTTAGAATTTGAT-TGTGTT---ATAATGAGGAGAACCAGGAACAAATTGCTATTTTAATATATCAACTGGG-AAAAACACAGATGGGACTCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555675 94 +   7543664 CTGAATGTTAGAATTTGAT-TGTATT---ATAATGAGGAGAACCAGGAACAAATTGCTATTTTAACATATCAACTGGG-AAAAACACAGATGGGACTCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312903 94 -  13750039 CTGAATGTTAGAATTTGAT-TGTGTT---ATAATGAGGAGAACCAGGAACAAATTGCTATTTTAACATATCAACTGGG-AAAAACACAGATGGGACTCT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571688 94 +  50472720 CTGAATGTATTAATTTGAT-TGTGTT---ATAATAAGGAGAACCAGGAACAAATTGCTCTTTTAATATATCAGCTGGG-AAAAACACAGATGGGACTCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731424 95 +  13128814 CTGAATGTATGAATTTGTT-TGTGTT---ATAATAAGGAGAACCAAGAACAAATTGCTCTTTTCATATATCAGCTGGGAAAAAACACAGATGGGACTCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987056 94 -  14377064 CTGGATGTACGAATTTGAT-TGTGTT---ATAATACGGAGAACCAGGAACAAATTGCTCTTTTAATATATCAGCTGGG-AAAAACACAGATGGGACTCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209405 94 -   9889416 CTGAATGTACAAATTTGAT-TGTGTT---ATAATAAGGAGAACCAGGAACAAATTGCTCTTTTAATATATCAGCTGGG-AAAAACACAGATGAGACTCT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23752907 95 +  47401472 CTGGATGTTAGCATTTGAT-TGTGTT---TCAAAGAGGAGAACCAGGAGCAAACTGCCATTTTAGTCTAGCAGCTGGCAAAAAACACAGATAGGACTCT
i micMur3.chr31             I 93 I 87
s otoGar3.GL873528           24936858 92 -  38779656 CTGGATATTAGCATTTGAT-TGTATTGTATCA-----GGAAACCAAGAGCAAATCACCACTTTAATACATTAGCTGGC-AAAAACACACCTGGAACTCT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18080321 92 +  39895921 CTGGATGTTGGAATTTGATCTTTAAT---ATAATGTGCA-CACTGGGCACACACTGCTATTTTCATATGGTAACTGTC-CTACCTCCCCCAAGCATT--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497553 74 +   3081153 CTGGATGCTAGAA-TTGAC-TGCATT---ATAGTAAGGAGAACTAGTAA-AAACTACCATTTT----------------AAA---TCTGATGGAAGTTT
i dasNov3.JH578070          C 0 C 0

a score=979699.000000
s hg38.chr21_GL383579v2_alt    186253 78 +    201197 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGAAG
s panTro5.chr21               8798417 78 +  33445071 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337511 78 +  46275980 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320683 78 -  13858734 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAGCAAACTAAgagagaag
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335446 78 +  32716333 TTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------ACTGGCCAGGGATACAACAAACTAAGAGAGATG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761534 78 - 185818997 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402383 78 - 192294377 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023078 78 -  30496662 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535128 78 +  21915920 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036503 78 -  90373283 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555769 78 +   7543664 CTAATAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5312997 78 -  13750039 CTAACAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACTTG---------AGTGGCCAGGGATACAACAAACTAAGAGAGATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571782 78 +  50472720 CTAACAGGCAATTATAAAAAGTTTAAAGAAGGA--ATAATT---------GACCTG---------AGTGGccagggatacagcaaaataagagagatg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731519 78 +  13128814 CTAACAGGCAATTATGAACAGTTTAAAGAAGGA--ATAATT---------GACCTG---------AGTGGCCAGGGATACAGCAAACTAAgagagatg
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987150 78 -  14377064 CTAACAGGCAATTATGAAAAGTTTAAAGAAGGA--ATAATT---------GACCTG---------AGTGGCCAGGGATACAGCAAATTAAgagagatg
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209499 80 -   9889416 CTAACAGGCAATTATGAAAAGTTTAAAGAAGGAATATAATT---------GACCTG---------AGTGGCCAGGGATACAGCAAACTAAgagagatg
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24936950 94 -  38779656 CTACCAGGCAGTCATGAAGAGTCAAAGGAAGGA--TTATTTACGAGCTAAGAGATGGTATCATCCAGAGGGCAGGATTAAGATGAACTAAGAGATG--
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18080413 78 +  39895921 CTAACAGGCAGTCATGAAAAGTCTAAAGAAGTG--ATTATC---------TACCTG---------AGTGGCCAGGTTTAGAGCAAACCACAAGAGTCG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497627 78 +   3081153 CTAAGCCTCAATTACTGAAAGTCTAAAAAAGGA--ATTATT---------TACTTG---------AGTGGCCAAAGTTAAGGAAAATCAAGAAAAACA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23753002 87 +  47401472 I

a score=1753153.000000
s hg38.chr21_GL383579v2_alt    186331 146 +    201197 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGT---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATCAC--CCAACAATAGCT--TTAGGCTTT-GGAGAGAAACG--GCCACTGGCCACCCTCATCGCCCTATTT
s panTro5.chr21               8798495 146 +  33445071 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGT---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATCAC--CCAACAATAGCT--TTAGGCTTT-GGAGAGAAATG--GCCACTGGCCACCCTCATCGCCCTATTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337589 146 +  46275980 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGT---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATCAC--CCAACAATAGCT--TTAGGCTTT-GGAGAGAAACG--GCCACTGGCCACCCTCATCGCCCTATTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320761 146 -  13858734 ttaccatcca-taggacagaagagtcaaagggtaaaataagt---tttaatccagagggaagccaggagcctgggctttagaaaaatcac--ccaacaatagct--ttaggcttt-ggagagaaacg--gccactggccaccctcatcgcccTATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335524 147 +  32716333 TTGCCATTCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGT---TTTAATCCAGAGGGAAACCAGGAGCCCAGGCTTTAGAAAAATCGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAACA--GCCACTGGCCACCCTCATCGCCCTATTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761612 147 - 185818997 TTACCATCCA-CAGGACAGAAGAGTCAAAGGGTAAAATAAGG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAACG--GCCGCAGGCCACCCTCATTGCCCTATTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402461 147 - 192294377 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAACG--GCCGCAGGCCACCCTCATTGCCCTATTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023156 147 -  30496662 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAACG--GCCACAGGCCACCCTCATTGCCCTATTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535206 147 +  21915920 TTATCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAATG--GCCGCAGGCCACCCTCATTGCCCTATTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036581 147 -  90373283 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAAG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAACA--GCCGCAGGCCACCCTCATTGCCATATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555847 147 +   7543664 TTACCATCCA-TAGGACAGAAGAGTCAAAGGGTAAAATAAGG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGGGAGAGAAACG--GCCGCAGGCCACCCTCATTGCCCTATTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313075 147 -  13750039 TTACCATCCG-TAGGACAGAAGAGTCAAAGGGTAAAATAAGG---TTTAATCCAGAGGGAAGCCAGGAGCCTGGGCTTTAGAAAAATAGC--CCAACAATAGCT--TTAGGCTTTGAGAGAGAAACG--GCCGCAGGCCACCCTCATTGCCCTATTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26571860 148 +  50472720 ttaccatccg-taggacagaagagtcaaagggtaaaatatgg---tttaatccagagagaagccaggagtctgggtttt-ggaaaattac--ccaacaatagct--ttaggctttgatagagaactgaaaccactggccacccTCATTGCTCTATCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731597 148 +  13128814 ctaccatcca-tagaacagaagagtcaaagggtaaaatatgg---tttaatccagagagaagccaggagcctgggtttt-ggaaaattac--ccaatgatagct--ttaggctttggtagagaaatgaaaccactggccacccTCATCGCTCTATCT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987228 148 -  14377064 ttaccatcca-taggacagaagagtcaaagggtagaatatgg---tttaatccagagagaagccaggagcctgggtttt-ggaaaattac--ccaatgatagct--ttaggctttggtagagaaatgaaactactggcaacccTCATTGCTCTATCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209579 146 -   9889416 ttaccatcca-taggacagaagagtcaaagggtaaaatatgg---tttaatacagagagaagccaggagcctgggtttt-ggaaaattac--ccaacaatagct--ttaggctttggtagagaaatg--accactggccaccTTCATCACTCTTTCT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23753089 150 +  47401472 TTACCATCCATTAGGACAAAAAGGTTAAAGGGTAAAATATGG---TTTAATCCACAGAGAGAACAAGAACCAGAGCTTTAGAAAAATCAC--CCAACAATCGCT--TTAGACATTGGTAGAGAAATGAAGCCACTGGCTACCCTCATCATCCTATTT
i micMur3.chr31             I 87 I 781
s otoGar3.GL873528           24937044 147 -  38779656 TTATCCTCCA-GAGGGC-AGAAGGTTCGAAAGTAAAATGTGG---CTTACTGCAGGAAGAGACCAAGAACTGGAGCTTTAGAAAATTCAC--CCCA-AATGGCT--TTTGACGTTGGTAGAGAAATGAAGCTACTGGTTACCCTCAGCTTCCTCTTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18080491 141 +  39895921 TTATGACCTG-GAGGAGAGAAGGGTCAAAGGATAGAATATGG---TTTGATGCAGAGAAAGAACCAGAGCTGGGTCTATGGAAAGG---------ACAAAGGTTAAGTGTATTTCTGAAGAGAAATGAAGCCACTGGTCACcctcacc-ctctac--
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497705 144 +   3081153 TTACCATCCA-TA-AACAGAGGAGTCAAGGATGAAATTGTGGTTATTTAATTGAGAGA------AAGAACTGGAGCTTTAGAACAAGGGCATCTGAGAAGAGGT--GTAGATTTCTGTGAAGAAATGAAGCCACAGCTtactctga---ccctatta
i dasNov3.JH578070          C 0 C 0

a score=277794.000000
s hg38.chr21_GL383579v2_alt    186477 25 +    201197 CTATTATCCCATATCCTATCAGTAT-
s panTro5.chr21               8798641 25 +  33445071 CTATTATCCCATATCCTATCAGTAT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337735 25 +  46275980 CTATTATCCCATATCCTATCAGTAT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320907 25 -  13858734 CTATTATCGCATATCCTATCAGTAT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335671 25 +  32716333 CTATTATCCCATATCCTATCAGTAT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761759 25 - 185818997 CTATTATCCCATATCCTATCAGTAC-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402608 25 - 192294377 CTATTATCCCATATCCTATCAGTAC-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023303 25 -  30496662 CTATTATCCCATATCCTATCAGTAC-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535353 25 +  21915920 CTATTATCCCATATCCTATCAGTAC-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036728 25 -  90373283 CTATTATCCCATATCCTATCAGTAC-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3555994 25 +   7543664 CTATTATCCCATATCCTATCAGTAC-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313222 25 -  13750039 CTATTATCCCATATCCTATCAGTAC-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572008 25 +  50472720 CTGTTATCCCATCTCCTATGAGTAC-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731745 25 +  13128814 CTGTTATCCCATCTCCTATGAGTAC-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987376 25 -  14377064 CTGTTATCCCATCTTCTATGAGTAC-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209725 25 -   9889416 CTGTTATCCCATCTCCTATGAGTAC-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24937191 25 -  38779656 CTGTCTTTGCATCTCCTGTCAGTGT-
i otoGar3.GL873528          C 0 I 15
s canFam3.chr31              18080632 25 +  39895921 cttcccttctacttcctgccggtgt-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2497849 26 +   3081153 ctgccctctcatctcctgccagtgat
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I

a score=14210.000000
s hg38.chr21_GL383579v2_alt    186502 5 +    201197 -CACCT
s panTro5.chr21               8798666 5 +  33445071 -CACCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337760 5 +  46275980 -CACCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320932 5 -  13858734 -CACCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335696 5 +  32716333 -CACCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761784 4 - 185818997 -CACC-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402633 4 - 192294377 -CACC-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023328 4 -  30496662 -CACC-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535378 3 +  21915920 -CA-C-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036753 4 -  90373283 -CACC-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3556019 4 +   7543664 -CACC-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313247 4 -  13750039 -CACC-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572033 4 +  50472720 -CACC-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731770 4 +  13128814 -CACC-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987401 4 -  14377064 -CACC-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209750 4 -   9889416 -CACC-
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18080657 4 +  39895921 -ctcc-
i canFam3.chr31             C 0 I 167
s dasNov3.JH578070            2497875 5 +   3081153 tccct-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=14146.000000
s hg38.chr21_GL383579v2_alt    186507 2 +    201197 TT
s panTro5.chr21               8798671 2 +  33445071 TT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337765 2 +  46275980 TT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320937 2 -  13858734 TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335701 2 +  32716333 TT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761788 2 - 185818997 TT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402637 2 - 192294377 TT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023332 2 -  30496662 TT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535381 2 +  21915920 TT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036757 2 -  90373283 TT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3556023 2 +   7543664 TT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313251 2 -  13750039 TT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572037 2 +  50472720 TG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731774 2 +  13128814 TG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987405 2 -  14377064 TG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9209754 2 -   9889416 TG
i aotNan1.NW_018487195v1    C 0 C 0
s dasNov3.JH578070            2497880 2 +   3081153 tt
i dasNov3.JH578070          C 0 I 191
e micMur3.chr31              23753239 781 +  47401472 I
e canFam3.chr31              18080661 167 +  39895921 I
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=1380125.000000
s hg38.chr21_GL383579v2_alt    186509 153 +    201197 GCAGGTGGcagaatatgctaccccaaaatatgtca-tttggcataaaaattactttgagttaaaggcacttgaaaaataacaaatgcaagacaagaactctgatgtgtta-ttttcttcctgaaaataggagatgaaactgtcaagtgaaagata
s panTro5.chr21               8798673 153 +  33445071 GCAGGTGGcagaatatgctaccccaaaatatgtca-tttggcataaaaattactttgagttaaaggcacttgaaaaataacaaatgcaagacaagaactctgatgtgtta-ttttcttcctgaaaataggagatgaaactgtcaagtgaaagata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337767 153 +  46275980 GCAGGTGGcagaatatgctaccccaaaatatgtca-tttggcataaaaattactttgagttaaaggcacttgaaaaataacaaatgcaagacaagaactctgatgtgtta-ttttcttcctgaaaataggagatgaaactgtcaagtgaaagata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8320939 152 -  13858734 GCAGGTGGcagaatatgcta-cccaaaatatgtca-tttggcataaaaattactttgagttaaaggcacttgaaaaataacaaatgcaagacaagaactctgatgtgtta-ttttcttcctgaaaataggagatgaaactgtcaagtgaaagata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335703 153 +  32716333 GCAGGTGGcagaacatgctaccccaaaatatgtca-tttggcataaaaattagtttgagttaaaagaacttgaaaaataacaaatgcaagacaagaactccaatgtgtta-ttttcttcctgaaaataggagatgaaactgtcaagtgaaagata
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761790 153 - 185818997 GCAGGTGGcagaatatactaccccaaaatatgtca-tttggcataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacaaagacaactctgatatgtta-ttttcttcctgaaaataggagacgcaactgtcaagtgaaagata
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402639 153 - 192294377 GCAGGTGGcagaatatactaccccaaaatatgtca-tttgacataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacaaagacaactctgatgtgtta-ttttcttcctgaaaataggagacgaaactgtcaagtgaaagata
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023334 153 -  30496662 GCAGGTGGcagaatatactaccccaaaatatgtca-tttggcataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacaaagacaactctgatgtgtta-ttttcttcctgaaaataggagacgaaactgtcaagtgaaagata
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535383 153 +  21915920 GCAAGTGGcagaatatactaccccaaaatatgtca-tttggcataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacaaagacaactctgatgtgtta-ttttcttcctgaaaataggagacgaaactgtcaagtgaaagata
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036759 153 -  90373283 GCAggtggcagaatatactaccccaaaatatgtca-tctggcataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacgaagacaactctgatgtgtta-ttttcttcctgaaaataggagacaaaactgtcaagtgaaagata
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3556025 153 +   7543664 GCAGGTGGcagaatatactaccccaaaatatgtca-tttggcataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacaaagacaactctgatgtgtta-ttttcttcctgaaaataggagacgaaactgtcaagtgaaagata
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313253 153 -  13750039 GCAGGTGGcagaatatactaccccaaaatatgtca-tttggcataaaaattagtttgagttaaaggcagttgaaaaataacaaatgcacgaagacaacgctgatgtatta-ttttcttcctgaaaataggagacgaaactgtcaagtgaaagata
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572039 148 +  50472720 GCCAGTGGcagaatatgccaccccaaaatatgtcattttggcataaaaattagtttgtgttaaagacacttgaaaaataacaaatgt-----gagaaagttgatgtgtta-ttttattcatg-aagggggagatgaaactgtcaagtgaaaggaa
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731776 149 +  13128814 GCCAGTGGcagaatatgccaccccaaaatatgtcattttggcataaaaattagtttgccttaaagacacttgaaaaataacaaatgt-----gagaatgctgatttattatttttttttctg-aatcaggagatgaaactgtcaagtgaaaggta
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987407 148 -  14377064 GCCAGTGGcagaatatgccaccccaaaatatgtcattttggcataaaaattagtttgtgttaaagacacttgaaaaatagcaaatgt-----gaaaatgctgatgtgtga-tttttttcctg-aatcaggagatgaaactgtcaagtgaagggta
i cebCap1.NW_016107322v1    C 0 I 75
s aotNan1.NW_018487195v1      9209756 148 -   9889416 GCCAGTGGcagaatatgccaccccaaaatatgtcattttggcataaaaattagcttgcgctaaagacacttgaaaaataacaaatgt-----gagaacgctgatgtgtta-tttttttcatg-aagcaggaaacgaaactgtcaagtgaaaggta
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e canFam3.chr31              18080661 167 +  39895921 I
e otoGar3.GL873528           24937216  15 -  38779656 I

a score=201559.000000
s hg38.chr21_GL383579v2_alt    186662 28 +    201197 cccttcttgta-cccgtaggaa----------------------acacaca
s panTro5.chr21               8798826 40 +  33445071 cccttcttgta-ccagtaggaa----------acacacacacacacacaca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337920 50 +  46275980 cccttcttgta-ccagtaggaaacacacacacacacacacacacacacaca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321091 36 -  13858734 cccttcttgta-ccagtaggaa--------------acacacacacacaca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335856 36 +  32716333 cccttcttgta-ccagtaggaa--------------acacacacacacaca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761943 28 - 185818997 cccttcttgta-ccggtaggaa----------------------acacaca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402792 28 - 192294377 cccttcttgta-ccggtaggaa----------------------acacaca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023487 28 -  30496662 cccttcttgta-ccggtaggaa----------------------acacaca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13535536 28 +  21915920 cccttcttgta-ccagtaggaa----------------------acacaca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20036912 28 -  90373283 tccttcttgta-ccagtaggaa----------------------acacaca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3556178 28 +   7543664 cccttcttgta-ccagtaggaa----------------------acacaca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313406 28 -  13750039 ccattcttgta-cccgtaggaa----------------------acacaca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572187 28 +  50472720 -ccttcctgtgtccagtaggaa----------------------acacaca
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731925 36 +  13128814 -ccttcctgtgtccagtaggaa--------------acacacacacacaca
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9209904 28 -   9889416 -ccttcttgtgtccagaaggaa----------------------acacaca
i aotNan1.NW_018487195v1    C 0 I 51
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e cebCap1.NW_016107322v1     13987555 75 -  14377064 I
e canFam3.chr31              18080661 167 +  39895921 I
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=34227.000000
s hg38.chr21_GL383579v2_alt    186690 5 +    201197 ttctc
s panTro5.chr21               8798866 5 +  33445071 cacac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337970 5 +  46275980 cacac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321127 5 -  13858734 cacac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335892 5 +  32716333 cacac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761971 5 - 185818997 cacac
i rheMac8.chr3              C 0 I 6
s macFas5.chr3              167402820 5 - 192294377 cacac
i macFas5.chr3              C 0 I 6
s macNem1.NW_012015021v1      5023515 5 -  30496662 cacac
i macNem1.NW_012015021v1    C 0 I 6
s cerAty1.NW_012002954v1     13535564 5 +  21915920 cacac
i cerAty1.NW_012002954v1    C 0 I 23
s chlSab2.chr2               20036940 5 -  90373283 cacac
i chlSab2.chr2              C 0 I 6
s manLeu1.NW_012103476v1      3556206 5 +   7543664 cacac
i manLeu1.NW_012103476v1    C 0 I 6
s colAng1.NW_012120598v1      5313434 5 -  13750039 caccc
i colAng1.NW_012120598v1    C 0 I 6
s calJac3.chr21              26572215 5 +  50472720 cacac
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731961 5 +  13128814 cacac
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e cebCap1.NW_016107322v1     13987555 75 -  14377064 I
e canFam3.chr31              18080661 167 +  39895921 I
e aotNan1.NW_018487195v1      9209932 51 -   9889416 I
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=5033.000000
s hg38.chr21_GL383579v2_alt    186695 12 +    201197 ------tctctctctctc
s panTro5.chr21               8798871 12 +  33445071 ------acactctctctc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337975 12 +  46275980 ------tctctctctctc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321132 12 -  13858734 ------acactctctctc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335897  6 +  32716333 ------actcac------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160761982  6 - 185818997 ------acacac------
i rheMac8.chr3              I 6 C 0
s macFas5.chr3              167402831  6 - 192294377 ------acacac------
i macFas5.chr3              I 6 C 0
s macNem1.NW_012015021v1      5023526  6 -  30496662 ------acacac------
i macNem1.NW_012015021v1    I 6 I 11
s chlSab2.chr2               20036951  6 -  90373283 ------acacac------
i chlSab2.chr2              I 6 I 11
s manLeu1.NW_012103476v1      3556217  6 +   7543664 ------acacac------
i manLeu1.NW_012103476v1    I 6 C 0
s colAng1.NW_012120598v1      5313445  6 -  13750039 ------acacac------
i colAng1.NW_012120598v1    I 6 I 11
s calJac3.chr21              26572220 12 +  50472720 acacacacacac------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731966 12 +  13128814 acacacacacac------
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e cerAty1.NW_012002954v1     13535569 23 +  21915920 I
e cebCap1.NW_016107322v1     13987555 75 -  14377064 I
e canFam3.chr31              18080661 167 +  39895921 I
e aotNan1.NW_018487195v1      9209932 51 -   9889416 I
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=11781.000000
s hg38.chr21_GL383579v2_alt    186707 30 +    201197 tctctctctcacatggtgagatgtgagata
s panTro5.chr21               8798883 30 +  33445071 tctctctcacacatggtgagatgtgagata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22337987 30 +  46275980 tctctctcacacatggtgagatgtgagata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321144 30 -  13858734 tctctgtctcacatggtgagatgtgagata
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160761988 14 - 185818997 -cacgcactcacatg---------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402837 14 - 192294377 -cacgcactcacaTG---------------
i macFas5.chr3              C 0 C 0
s manLeu1.NW_012103476v1      3556223 14 +   7543664 -cacgcactcacatg---------------
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26572232 20 +  50472720 acacacacacacttg----catac------
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731978 20 +  13128814 acacacacacacttg----catgc------
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e cerAty1.NW_012002954v1     13535569 23 +  21915920 I
e macNem1.NW_012015021v1      5023532 11 -  30496662 I
e cebCap1.NW_016107322v1     13987555 75 -  14377064 I
e canFam3.chr31              18080661 167 +  39895921 I
e aotNan1.NW_018487195v1      9209932 51 -   9889416 I
e otoGar3.GL873528           24937216 15 -  38779656 I
e colAng1.NW_012120598v1      5313451 11 -  13750039 I
e chlSab2.chr2               20036957 11 -  90373283 I
e nomLeu3.chr25               9335903  0 +  32716333 C

a score=-294.000000
s hg38.chr21_GL383579v2_alt    186737 2 +    201197 ag-
s panTro5.chr21               8798913 2 +  33445071 ag-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338017 2 +  46275980 ag-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321174 2 -  13858734 ag-
i gorGor5.CYUI01015003v1    C 0 C 0
s aotNan1.NW_018487195v1      9209983 2 -   9889416 -gc
i aotNan1.NW_018487195v1    I 51 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e cerAty1.NW_012002954v1     13535569 23 +  21915920 I
e macNem1.NW_012015021v1      5023532 11 -  30496662 I
e macFas5.chr3              167402851 0 - 192294377 C
e rheMac8.chr3              160762002 0 - 185818997 C
e cebCap1.NW_016107322v1     13987555 75 -  14377064 I
e canFam3.chr31              18080661 167 +  39895921 I
e calJac3.chr21              26572252 0 +  50472720 C
e saiBol1.JH378168            8731998 0 +  13128814 C
e otoGar3.GL873528           24937216 15 -  38779656 I
e colAng1.NW_012120598v1      5313451 11 -  13750039 I
e manLeu1.NW_012103476v1      3556237 0 +   7543664 C
e chlSab2.chr2               20036957 11 -  90373283 I
e nomLeu3.chr25               9335903 0 +  32716333 C

a score=5639894.000000
s hg38.chr21_GL383579v2_alt    186739 659 +    201197  
s panTro5.chr21               8798915 655 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338019 657 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321176 661 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9335903 648 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762002 648 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167402851 648 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5023543 651 -  30496662  
i macNem1.NW_012015021v1    I 11 C 0
s cerAty1.NW_012002954v1     13535592 650 +  21915920  
i cerAty1.NW_012002954v1    I 23 C 0
s chlSab2.chr2               20036968 657 -  90373283  
i chlSab2.chr2              I 11 C 0
s manLeu1.NW_012103476v1      3556237 652 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5313462 653 -  13750039  
i colAng1.NW_012120598v1    I 11 C 0
s calJac3.chr21              26572252 566 +  50472720  
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8731998 568 +  13128814  
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13987630 568 -  14377064  
i cebCap1.NW_016107322v1    I 75 C 0
s aotNan1.NW_018487195v1      9209985 565 -   9889416  
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e canFam3.chr31              18080661 167 +  39895921 I
e otoGar3.GL873528           24937216  15 -  38779656 I

a score=1433170.000000
s hg38.chr21_GL383579v2_alt    187398 174 +    201197 ctcagcctcccaagtacctgggattacaggcgcccaccagcacacctggctactttttg--tatttttagtagagacggggtttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccaactgcctcagcttcccaaggtgcgggggttacaggcatgagcca
s panTro5.chr21               8799570 174 +  33445071 ctcagcctcccaagtacctgggattacaggcgcccaccagcacacctggctaatttttg--tatttttagtagagacggggttttaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccaactgcctcagcttcccaagctgcggggattacaggcatgagcca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338676 174 +  46275980 ctcagcctcccaagtacctgggattacaggcgcccaccagcacacctggctaatttttg--tatttttagtagagacggggttttaccatgttggtcagcctggtctcgaactcctgaactcaggtgatccaactgcctcagcttcccaagctgcggggattacaggcatgagcca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8321837 174 -  13858734 ctcagcctcccaagtacctgggattacaggcacccaccagcacacctggctaatttttg--tatttttagtagagacggagtttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccaactgcctcagcttcccaaggtgcggggattacaggcatgagcca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9336551 174 +  32716333 ctcagcctcccaagtatccaggattacaggcacccaccagcacacctggctaatttttg--tatttttagtagagacagggtttcaccatgttggtcaggctggtctccaactcctgaactcaggtgatccaactgcctcagcttcccaaaatgcggggattacaggcataagcca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762650 174 - 185818997 ctcagcctaccaagtatctgggattataggcgcccgccagcacacctggctaatttttg--tataatcagtaaaggcgggttttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcaacctcccaaagtgcgggcattacaggcatgagcca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167403499 174 - 192294377 ctcagcctaccaagtatctgggattataggcgcccgccagcacacctggctaatttttg--tataatcagtaaaggcgggttttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcaacctcccaaagtgcgggcattacaggcatgagcca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024194 174 -  30496662 ctcagcctaccaagtatctgggattataggcgcccgccagcacacctggctaatttttg--tataatcagtaaaggcgggttttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcaacctcccaaagtgcgggcattacaggcatgagcca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536242 174 +  21915920 ctcagcctaccaagtatctgggattataggtgcccgccagcacacctggctaatttttg--tataatcagtaaaggcgggttttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcaacctcccaaagtgcgggcattacaggcatgagcca
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20037625 174 -  90373283 ctcagcctaccaagtatctgggattataggcacccaccagcacacctggctactttttg--tataatcagtagaggcgggttttcaccatgttagtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcagcctcccaaagtgcgggcattacaggcatgagcca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3556889 174 +   7543664 ctcagcctaccaagtatctgggattataggtgcccgccagcacacctggctaatttttg--tataatcagtaaaggcgggttttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcaacctcccaaagtgcgggcattacaggcttgagcca
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314115 173 -  13750039 ctcagcctaccaagtatctgggattataggtgcccgccagcacacctggctaatttttg--tataatcagtagggg-gcgttttcaccatgttggtcaggctggtctcgaactcctgaactcaggtgatccacccgcctcagcctcccaaagtgcgggcattacaggcatgagcca
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572818 175 +  50472720 ctcagcctccccagtacccaggattacagccacccgccaccacacctggctaatttttgt-tttttttagtagagacggggtttcaccatgttgaccaggctgatcttgaacttctgacctcaggtgatctacccacctcagcctcccaaagtgctgggattacaggcatgaacaa
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13988198 174 -  14377064 ctcagcctccccagtagctggaattacagcctcccgccaccaaacctggctaatttttg--tatttttagtagagacggggtttcaccatgttggccaggctgatctcgaacttctgacctcaggtgatctacccacctcagcctcccaaagtgctgggattacaggcatgagcaa
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9210550 176 -   9889416 ctcagcctccccagtagctgggacttcagccgcccaccaccacacctggctaatttttgtatatttttagtagagacggagtttcaccctgttggccaggctgatctagaacttctgacctcaggtgatctacccatctcagcctcccaaagtgctgagattacaggcatgagcaa
i aotNan1.NW_018487195v1    C 0 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e canFam3.chr31              18080661 167 +  39895921 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e otoGar3.GL873528           24937216  15 -  38779656 I

a score=355586.000000
s hg38.chr21_GL383579v2_alt    187572  49 +    201197 ctgcacccagccTTTTTTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
s panTro5.chr21               8799744  49 +  33445071 ctgcacccagccTTTTTTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338850  49 +  46275980 ctgcacccagccTTTTTTTC---------------------------------------------------------TTTTTAATCTACTCTATTTT----CCAAACATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322011  49 -  13858734 ctgcacccagccTTTTTTTC---------------------------------------------------------TTTTTCATCTACTCTATTTT----CCAAACATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9336725  49 +  32716333 ctgcacccagccTTTTTTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762824  49 - 185818997 ccatgcccggtcTTTTCTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167403673  49 - 192294377 ccatgcccggtcTTTTCTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024368  49 -  30496662 ccatgcccggtcTTTTCTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536416  49 +  21915920 ccatgcccggtcTTTTCTTG---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20037799  49 -  90373283 ccatgcccggtcTTTTCTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557063  49 +   7543664 ccatgcccggtcTTTTCTTC---------------------------------------------------------TTTTTTATCTACTCTATTTT----CCAAACATA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314288  49 -  13750039 ccatgcccggtcTTTCCTTC---------------------------------------------------------TTTTTCATCTACTCTATTTT----CCAAACATA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26572993 106 +  50472720 ccatgcccagccTTttcttcttctccttcttcttcttcttcttcttcttcttcttcttcttcttcttcttcttcttcttcttcACTTACTCTGTATT----CTAAACACG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13988372  51 -  14377064 ccacccctaaccTTTTCTTCTT-------------------------------------------------------TTTTTTATTTACTCTATATT----CTAAACATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9210726  51 -   9889416 ccatgcccagccTTTTCTTCTT-------------------------------------------------------TTTTTAATTTACTCTATATT----CTAAACATA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18080828  53 +  39895921 CTTCAACCTTCCTTTTTCTC---------------------------------------------------------TATTTGGTCCTTTCTGTGGTAGAGAGAAATATG
i canFam3.chr31             I 167 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e dasNov3.JH578070            2497882 191 +   3081153 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e otoGar3.GL873528           24937216  15 -  38779656 I

a score=86155.000000
s hg38.chr21_GL383579v2_alt    187621 8 +    201197 TGATTTGG
s panTro5.chr21               8799793 8 +  33445071 TGATTTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338899 8 +  46275980 TGATTTGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322060 8 -  13858734 TGATTTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9336774 8 +  32716333 TGATTTGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762873 8 - 185818997 TGATTTGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167403722 8 - 192294377 TGATTTGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024417 8 -  30496662 TGATTTGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536465 8 +  21915920 TGATTTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20037848 8 -  90373283 AGATTTGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557112 8 +   7543664 TGATTTGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314337 8 -  13750039 TGATTTGG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26573099 8 +  50472720 TGATTTGG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13988423 8 -  14377064 TGATTTAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9210777 8 -   9889416 CAATTTGG
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18080881 8 +  39895921 TGACTTAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2498073 8 +   3081153 TGAATTGG
i dasNov3.JH578070          I 191 C 0
e micMur3.chr31              23753239 781 +  47401472 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=401016.000000
s hg38.chr21_GL383579v2_alt    187629 42 +    201197 AAATTTGAG-----------ATAAATAACTGGTGCAGCT-------GTTTTTCTCT-GGGA
s panTro5.chr21               8799801 43 +  33445071 AAATTTGAG-----------ATAAATAACTGGTGCAGCT-------GTTTTTCTCTGGGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338907 43 +  46275980 AAATTTGAG-----------ATAAATAACTGGTGCAGCT-------GTTTTTCTCTGGGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322068 43 -  13858734 AAATTTGAG-----------ATAAATAACTGGTGCAGCT-------GTTTTTCTCTGGGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9336782 43 +  32716333 AAATTTGAG-----------ATAAATAACTGATGCAGCT-------GTTTTTCTCTGGGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762881 39 - 185818997 AAATTGGAG---------------ATAACTGGTACAGCT-------GTTTATCTCTGGGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167403730 39 - 192294377 AAATTGGAG---------------ATAACTGGTACAGCT-------GTTTATCTCTGGGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024425 43 -  30496662 AAATTGGAG-----------ATAAATAACTGGTACAGCT-------GTTTATCTCTGGGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536473 43 +  21915920 AAATTGGAG-----------ATAAATAACTGGTACAGCT-------GTTTATCTCTGGGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20037856 43 -  90373283 AAATTGGAG-----------ATAAATAACTGGTGCAGCT-------GTTTATCTCTGGGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557120 43 +   7543664 AAATTGGAG-----------ATAAATAACTGGTACAGCT-------GTTTATCTCTGGGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314345 43 -  13750039 AAATTGGAG-----------ATAAATAACTGGTGCAGCT-------GTTTATCTCTGGGGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26573107 43 +  50472720 AAATTTGAG-----------ATAAATAACTGGTGCTGCT-------TTTTTTCTCTGGGGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13988431 43 -  14377064 AAATTTCAG-----------ATAAATAACTGGTGCTGCT-------TTTTTTCTCTGGGGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9210785 43 -   9889416 AAATCTGAG-----------ATAAATAACTGGTGCTGCT-------TTTTTTCTCTGGGGA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23754020 42 +  47401472 AAATTTGGG-----------ATAAATAACTGGTGCTTCT-------TTTTTTCTCTGGGA-
i micMur3.chr31             I 781 I 2499
s canFam3.chr31              18080889 43 +  39895921 AAATTTGGA-----------ATGAATTACTGATGCTTTT-------CTCTCCCCCTGTGGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2498081 58 +   3081153 --ATTTGGGGGATGAATAACATGCATGACTGGATCAGCTCTGCTACTTTTTTCTTTCGTG-
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=79354.000000
s hg38.chr21_GL383579v2_alt    187671 7 +    201197 TCCAGCC
s panTro5.chr21               8799844 7 +  33445071 TCCAGCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338950 7 +  46275980 TCCAGCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322111 7 -  13858734 TCCAGCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9336825 7 +  32716333 TCCAGCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762920 7 - 185818997 TCCAGCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167403769 7 - 192294377 TCCAGCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024468 7 -  30496662 TCCAGCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536516 7 +  21915920 TCCAGCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20037899 7 -  90373283 TCCAGCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557163 7 +   7543664 TCCAGCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314388 7 -  13750039 TCCAGCC
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26573150 7 +  50472720 TCCAGCC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13988474 7 -  14377064 TCCAGCC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9210828 7 -   9889416 TCCAGCC
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18080932 7 +  39895921 TTTAGCT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2498139 7 +   3081153 ATCAGCT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24937216 15 -  38779656 I

a score=3728101.000000
s hg38.chr21_GL383579v2_alt    187678 387 +    201197 TGACCACAGAGAATATGTGATTTT---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGACTTATACCAGTACTACCTCTGACAGCTTGGCTAAGTTTCCTTACTTGTAAATTCAAGGGGTCA-GTTAGTTTTTACGCTAACATATGTCCTCCTACCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCTCCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--TTCAGGTTTTGAGGAG-AAAACAGAGATGATTTGTATTGGAAAGGCCCCAGGGAACTCTCAACGCATGCATGACACTCAATGTTGTACTTCATTGTCATGATTATTTGGCCTTCTCGATAGAGTTATAACATGTTTACTACTCTCCTTGGAGGTA-TAAAAAATGTTTTG
s panTro5.chr21               8799851 387 +  33445071 TGACCACAGAGAATATGTGATTTT---TA-TATGCTATGCTGGTC--TCTAAGCCTTGTTGACTTATACCAGTACTACCTCTGACAGCTTGGCTAAGTTTCCTTACTTGTAAATTCGAGGGGCCA-GTTAGTTTTTATGCTAACATATGTCCTCCTGCCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCTCCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--TTCAGGTTTTGAGGAG-AAAACAGAGATGATTTGTATTGGAAAGGCCCCAGCGAACTCTCAGTGCATGCATGACAGTCAATGTTGTACTTCATTGTCATGATTATTTAGCCTTCTCGATAGAGTTATAACATGTTTTCTACTCTCCTTGGAGGTA-TAAAAAATGTTTTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22338957 387 +  46275980 TGACCACAGAGAATATGTGATTTT---TA-TATGCTATGCTGGTC--TCTAAGCCTTGTTGACTTATACCAGTACTACCTCTGACAGCTTGGCTAAGTTTCCTTACTTGTAAATTCGAGGGGCCA-GTTAGTTTTTATGCTAACATATGTCCTCCTGCCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCTCCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--TTCAGGTTTTGAGGAG-AAAACAGAGATGATTTGTATTGGAAAGGCCCCAGCGAACTCTCAGTGCATGCATGACAGTCAATGTTGTACTTCATTGTCATGATTATTTAGCCTTCTCGATAGAGTTATAACATGTTTTCTACTCTCCTTGGAGGTA-TAAAAAATGTTTTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322118 387 -  13858734 TGACCACAGAGAATATGTGATTTT---TA-TATGCTATGCTGGTC--TCTAAGCCTTGTTGACTTATACCAGTACTACCTCTGACAGCTTGGCTAAGTTTCCTTACTTGTAAATTCAAGGGGCCA-GTTAGTTTTTATGCTAACATATGTCCTCCTACCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCTCCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--TTCAGGTTTTGAGGAG-AAGACAGAGATGATTTGTATTGGAAAGGCCCCAGCGAACTCTCAATGCATGCATGACAGTCAATGTTATACTTCATTGTCATGATTATTTAGCCTTCTCGATAGAGTTATAACATGTTTTCTGCTCTCCTTGGAGGTA-TAAAAAATGTTTTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9336832 386 +  32716333 TGACCACAGAGAATATGTGATTTT---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGACTTATACCAGTACTACCTCTGACAGCTTGGCTAAGTTTCCTTACTTGTAAATTCGA-GGGCCA-GTTAGTTTTTATGCTAACATATGTTCTCCTATCTAGTTCTG-T-CATAACAGAGGTAATATTTTCTCCTTAATACTGACTCTTTATTTCAAATCTCAGCCTC--TTCAGGTTTTGAGGAG-AAAACAGAGATGATTTGTATTGGAAAGGCCCCAGGGAACTCTCAACACATGGATGATACTCAATGTTGTACTTCATTGTCATGATTATTTAGCCTTCTCGATAGAGTTATAACATGTTTTCTACTCTCCTTGGAGGTA-TAAAAAATGTTTTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160762927 388 - 185818997 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGAgttataccagtactacctctgacagcctggctaagtttctttacttgtagattagagaggcca-gttagtttttatgctaatatatatcctcctacctagttcta-t-cataacagaggtaatgttttcgccttaatattgactccttatttcaaatctcagactc--ttcaggctttgaggag-aaaacagagatgacttgtattagaaaggccccAGGGAATTCTCAAGGCGTGGATGACACTCAATGTTGTACTTCATTGCCTTGATTATTTAGCCTTCTCAATAGAGTTGTAACCTGTTTTCTGCTCTCCTTGGAGGTGTTAAAAAATATTTTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167403776 388 - 192294377 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGAGTTATACCAGTACTACCTCTGACAGCCTGGCTAAGTTTCTTTACTTGTAGATTAGAGAGGCCA-GTTAGTTTTTATGCTAATATATATCCTCCTACCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCGCCTTAATATTGACTCCTTATTTCAAATCTCAGACTC--TTCAGGCTTTGAGGAG-AAAACAGAGATGACTTGTATTAGAAAGGCCCCAGGGAATTCTCAAGGCGTGGATGACACTCAATGTTGTACTTCATTGCCATGATTATTTAGCCTTCTCAATAGAGTTGTAACCTGTTTTCTGCTCTCCTTGGAGGTGTTAAAAAATATTTTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024475 388 -  30496662 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGAGTTATACCAGTACTACCTCTGACAGCCTGGCTAAGTTTCTTTACTTGTAGATTAGAGAGGCCA-GTTAGTTTTTATGCTAACATATGTCCTCCTACCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCGCCTTAATATTGACTCCTTATTTCAAATCTCAGACTC--TTCACGCTTTGAGGAG-AAAACAGAGATGACTTGTATTAGAAAGGCCCCAGGGAATTCTCAAGGCGTGGATGACACTCAATGTTGTACTTCATTGCCATGATTATTTAGCCTTCTCAATAGAGTTGTAACCTGTTTTCTGCTCTCCTTGGAGGTGTTAAAAAATGTTTTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536523 388 +  21915920 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGAGTTATACCAGTACTACCTCTGACAGCCTGGCTAAGTTTCTTTACTTGTAAATTAGAGAGGCCA-GTTAGTTTTTATGCTAACATATGTCCTCCTACCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCGCCTTAATATTGACTCCTTATTTCAAATCTCAGACTC--TTCAGGCTTTGAGGAG-AAAACAGAGATGACTTGTATTAGAAAGGCCCCAGGGAATTCTCAAGGCGTGGATGACACTCAATGTTGTACTTCATTGCCATGATTATTTAGCCTTCTCAATAGAGTTGTAACCTGTTTTCTGCTCTCCTTGGAGGTATTAAAAAATGTTTTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20037906 388 -  90373283 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTGAGCCTTGTTGAGTTGTACCAGTACTACCTCTGACAGCCTGGCTAAGTTTCTTTACTTGTAAATTAGAGAGGCCA-GTTAGTTTTTATGCTAACATATGTCTTCCTACCTAGTTCTA-T-CATAACAGAGGTAATGTTTTCGCCTTAATATTGACTCCTTATTTCAAATCTCAGACTC--TTCAGGCTTTGAGGAG-AAAACAGAGATGACTTGTATTAGAAAGGCCCCAGGGAATTCTCAAGGCGTGGATGACACTCAATGTTGTGCTTCATTGCCATGATTATTTAGCCTTCTCAATAGAGTTGTAACCTGTTTTCTGCTCTCCTTGGAGGTATTAAAAAATGTTTTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557170 388 +   7543664 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGAgttataccagtactacctctgacagcctggctaagtttctttacttgtaaattagagaggcca-gttagtttttatgctaacatatgtcctcctacctagttcta-t-cataacagaggtaatgttttcaccttaatattgactccttatttcaaatctcagactc--ttcaggctttgaggag-aaaacagagatgacttgtattagaaaggccccAGGGAATTCTCAAGGCGTGGATGACACTCAATGTTGTACTTCATTGCCATGATTATTTAGCCTTCTCAATAGAGTTGTAACCTGTTTTCTGCTCTCCTTGGAGGTATTAAAAAATGTTTTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314395 389 -  13750039 TGACCACAGAGAATATGTGATTTG---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGAGTTATACCAGTACTACCTCTGACAGCCTGGCTAAGTTTCTTTACTTGTAAATTAGAGAGGCCA-ATTAGTTTTTACGCTAACATATGTCCTCCTACCTCGTTCTA-T-CATAACAGAGGTAATGTTTTTGCCTTAATATTGACTCCTTATTTCAAATCTCAGACTCTGTGCAGGCTTTGAGGAG-AAAACAAAGATGACTTGTATTAGAAAGGCCCCAGGGAATTCTCACGGCGTGGATGACACTCAATGTTGTACTTCATTGCCATGATTATTTGGCCTTCTCAATAGAGTTGTAACCTGTTTTCTACTCTCCTTGGAGATA-TGAAAAATGTTTTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26573157 385 +  50472720 TGACCACAGAGACTATGTGATTTC---TA-TTTGCTATGCTGGTC--TCTAAGCCTTGTTGACTTATGCCAGTACTACCTATGACAGCCTGGCTGAGTTT-TTTACTTGTAAAGTAGAGGTGCCA-GTTTGATTTT--GCTGACGTATGTCTTCCCACCTGGTTCTA-T-GATAACAGAGGTAATGTTTTCACCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--CTCAGGCTTTGAGGAG-AAAACATGGATGATTTATGTTGAAATGACCTCAGGGAACTCTAAACACGTGGATGAAACTCAAGGTTGTACTTCATTGCCATGATGACTTAGCCATCTCAGTAGAGTTGTAACCTGTTTTCTACACTCCTTGGAGGTATAAAAAAATGTTTTG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13988481 384 -  14377064 TGACCACAGAGACTATGTGATTTC---TA-TTTGCTATGCTGGTC--TCTAAGCCTCGTTGACTTATGCCAGTACTACCTATGACAGCTTGGCTGAGTTT-TTTACTTGTAAAGTAGAGGCGCCA-GTTTGATTTT--GCTAACATATGTCTTCCCACCTGGTTCTA-T-CATAACAGAGGTAATGTTTTCACCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--TTCAGGCTTTGAGGAG-AAAACATAGATGATTTGTGTTGAAATGACCCCAGGGAACTCTAAACACATGAATGAAACTCAATGTTGTACTTCATTGCCATGATTACTTAGCCTTCTCAGTAGAGTTGTAAGCTGTTTTCTATACTGCTTGGAGGTAT-AAAAAATGTTTTG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9210835 386 -   9889416 TGAACACAGAGACTACGTGATTTCTATTA-TTTGCTATGTTGGTC--TCTAAGCCTCGTTGACTTATGCCAGTACTACCTATGACAGCTTGGCTGAGTTT-TTTACTTGTAAAGTAGAGGTGCCA-GTTTGATTTT--GCTAACATATGTCTTCCCACATGGTTCTA-T-CATAACAGAGGTAATGTTTTCACCTTAATATTGACTCCTTATTTCAAATCTCAGCCTC--TTCAGGCTTTGAGGAG-AAAACA--GATGATTTGTGTTGAAATGACCCCAGGGAACTCTAAACACATGGATGAAACTCAGTGCCGTACTTCATTGCCATGATTACTTACCCTTCTTAGTAGAGTTGTAACCTATTTTCTACACTCCTTGGAGGCATAAAAAAATGTTTTG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24937231 344 -  38779656 TGGCCACAGAGAATATCTGTTCAT---CA-TCTGCTCTGCTGG-C--TCTCAGCTTTGCTGA------CCAGTACCACTGCTGACAGCGGGGCTGAGTCTCCCTTATTCTGCAGGAGAAAATCCA--TTTGTTTTCTTACTTAGCTATGCTTTCCTACTTGGTTATA-TCCATAACAAATGTAGTATTTCAGCCTTCATATTGACT------------------------TTCA----TTGGGTTG-AAAACAGAGACAATCTATACTGGG--GGGCTCAAAGA---CCCAACACTTAGA-GTTACTCTGTATAATACCTCA----CACGATTACTTAGCCCTCTCAGCAGAGGAATAACCAGTTTTCTACTCTTCTAAGAGGTA-TAAAAAATATCCTG
i otoGar3.GL873528          I 15 I 452
s canFam3.chr31              18080939 326 +  39895921 ACCCCATGGAGAACATGTGTTCTC---TG-TTTGCTATGCCGGCTGGCCTCAGCGTCACTGA--TGTGATagtactacctctgacagcctggct--gtctctccagttctgcattagagagctcatttttatttctatgctaatctgtgtcctactacctgggtctagc-cataataaaggtaatattttaaccttgagatttactccttattgcatatctcagcttg--ttcagaacccgggcag-caaacagaaatgccctgtattaggg-gacccttagaaatccccagcaCTCAGAAGTTGGTCCATTTGGTACGTCACTGCCAAGAA------------------------------------------------------CAAAAAA-------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2498146 381 +   3081153 ATCCTAAAGAAACTATGTATTCTC---TGTTTTGCCTTGATGGAC--TCTGAACCTCATTGATCTTCACCAGTACCACCGCTGACAGGTTGGCTAAGGCTTCCTAACTTTATATAACAGGGCCTA-TTTTGTTTTAAGATTAACTCATATCCTCCTACATGT------G-CAtaataaaggttatattt-ggccttgatgttcactccttatttcagatctcagatag--ttcaggatttggggagaaaaacagaggtgccctatattggTCTACTCCTATGGATTTTCCTCAACATGGAAGCTACTCTACATAGTACTTCATTCCCAAAATT-CTTAGCCTTCTCAATAGAAATTGAACCTGTATTCTGCTGTGTTAGCAGGTA-TAAACAATATTTG-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=1006122.000000
s hg38.chr21_GL383579v2_alt    188065 118 +    201197 AAATATGATTGAAGTGGAGTTAGTCATAGAGATATGAAAACCAGTACTCTTCCCCT-TACAGGAAGAAAGGCTACTACAATGTCAATCCTCAAAAGA---CTACTGTTGTCTCAAAATGTGG
s panTro5.chr21               8800238 118 +  33445071 AAATATGATTGAAGTGGAGTTAGTCATAGAGATATGAAAACCAGTACTCTTCCCCT-TACAGGAAGAAAGGCTACTACAATGTCAATCCTCAAAAGA---CTACTGGTGTCTCAAAATGTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339344 118 +  46275980 AAATATGATTGAAGTGGAGTTAGTCATAGAGATATGAAAACCAGTACTCTTCCCCT-TACAGGAAGAAAGGCTACTACAATGTCAATCCTCAAAAGA---CTACTGGTGTCTCAAAATGTGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322505 118 -  13858734 ACATACGATTGAAGTGGAGTTAGTCGTAGAGATATGAAAACCAGTACTCTTCCCCT-TACAGGAAGAAAGGCTACTACAATGTCAATCCTCAAAAGA---CTACTGGTGTCTCAAAATGTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337218 116 +  32716333 ACATACGATTGAAGTGGAGTTGGTCATAGAAATGTGAAAACCAGTACTC-TCCCCT-TCCAGGAAGAAAGGCTACTACAATGTCAATCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763315 116 - 185818997 ACATACGACTGAAGTGGAGTTAGTCATAGAGATATGAAAGCCATTACTC-TCCCCC-TACAGGAAGAAAGGCTACTACAATGTCAGTCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404164 116 - 192294377 ACATACGACTGAAGTGGAGTTAGTCATAGAGATATGAAAGCCATTACTC-TCCCCC-TACAGGAAGAAAGGCTACTACAATGTCAGTCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024863 116 -  30496662 ACATACGACTGAAGTGGAGTTAGTCATAGAGATATGAAAGCCATTACTC-TCCCCC-TACAGGAAGAAAGGCTACTACAATGTCAGTCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13536911 116 +  21915920 ACATACGACTGAAGCGGAGTTAGTCATAGAGATATGAAAGCCAGTACTC-TCCCCC-TACAGGAAGAAAGGCTACTACAATGTCAGTCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038294 116 -  90373283 ACATACGACTGAAGTGGAGTTAGTCCTAGAGATATGAAAGCCAGTACTC-TCCCCT-TACAGGAAGAAAGGCTACTATAATGTCAGTCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557558 116 +   7543664 ACATACGACTGAAGCGGAGTTAGTCATAGAGATATGAAAGCCAGTACTC-TCCCCC-TACAGGAAGAAAGGCTACTACAATGTCAGTCCTCAAAAGA---CTACTG-TGTCTCAAAATGTGG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314784 116 -  13750039 ACATATGACTGAAGTGGAGTTAGTCAAAGAGATATGAAAACCAGGACTT-TCCCCT-TACAGGAAGAAAGGCTACTACAATTTCAGTCCTCCAAAGA---CTACTG-CGTCTCAAAATGTAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26573542 114 +  50472720 ATTTATGATTGAAGTGGAGTTAGTCATAGACATATGAAAATCAGTACTC-TCCCCT-TACAGGAAGAAAGATTACCACTA--TCAATCCTCAAAAGA---TTACTG-TGCCTCAAAATATGT
i calJac3.chr21             C 0 I 984
s cebCap1.NW_016107322v1     13988865 114 -  14377064 ATTTATGATTGACGTGGAGTTAGTCATAGAGATATGAAAATCAGTACTC-TCCCCT-TACAGGAAGAAAGATTACTATAA--TCAATCCTCGAAAGA---TTACTG-TGTCTCAAAATATGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9211221 114 -   9889416 ATTTATGATTGAAGTGGAGTTAGTCATAGAGATATGAAAATCAGTACTC-TCCCCT-TACAGGAAGAAAGATTACTATAA--TCAATCCTCAAAAGA---TTACTG-TGTCTCAAAATATGG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24938027 109 -  38779656 aaatac-----aagtagacttaatgatagaga--tgaagatCAGCACTC-TCCCAT-CATATGCAGAAAGGTCATTTCAATGTCAATCCTGAGATGA---TTACAG-TGTCTTAGAACGTGA
i otoGar3.GL873528          I 452 C 0
s canFam3.chr31              18081265  22 +  39895921 -----------------------------AAATATGGGA--------------------------------------------CGATTCTTGACA---------------------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2498527 120 +   3081153 CCATACACTTGAAATGGAGTCAATATTGGAGATACGGAAAGCAGCATTC-TCTCCTAAACAGACAGAAAGGTTACTATATTGTCAATCCCAAGAAGATTTTTACTG-AGTCCCACAGAGCTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=2650556.000000
s hg38.chr21_GL383579v2_alt    188183 300 +    201197 TTGTCTCGTAACCTTCATCAACA----------------------------TAAAAGAGAAAAGAACAG-AAATACTGTGAACAAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCT-TAAAAA-GCTATGGGATCAGGTAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTGCCTTACAGAATAATTTTTCTATCCAATAAGAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTTCATCATGGGG------------AAAATAAACGtt--a----agttataatcatttaccatacttaatatttaatattGGG----TATA
s panTro5.chr21               8800356 300 +  33445071 TTGTCTCGTAACCCTCATCAACA----------------------------TAAAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCT-TAAAAA-GCTATGGGATCAGGTAATGTTTACCAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTGCCTTACAGAATAATTTTTCTATCCAATAAGAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTTCATCATGGGG------------AAAATAAACGtt--a----agttataatcatttaccatacttaatatttaatattGGG----TATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339462 300 +  46275980 TTGTCTCGTAACCCTCATCAACA----------------------------TAAAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCT-TAAAAA-GCTATGGGATCAGGTAATGTTTACCAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTGCCTTACAGAATAATTTTTCTATCCAATAAGAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTTCATCATGGGG------------AAAATAAACGtt--a----agttataatcatttaccatacttaatatttaatattGGG----TATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322623 300 -  13858734 TTGTCTCGTAACCCTCATCAACA----------------------------TAAAAGAGAAAAGAACAG-AAATACTGTGAACCTATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCT-TAAAAA-GCTATGGGATCAGGTAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTGCCTTACAGAATAATTTTTCTATCCAATAAGAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTTCATCATGGGG------------AAAATAAACGtt--a----agttataatcatttaccatacttaatatttaatattGGG----TATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337334 299 +  32716333 TTGTCTCGTAACCCTCATCAACA----------------------------TAAAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAATATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCT-TAAAAA-GCTATGGGATCAGGT-ATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTGCCTTACAGAATAATTTTTCTATCCAATAAGAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTTCATCATAGGG------------AAAATAAATGtt--a----agttataatcatttaccatacttaatatttaatattGGG----TATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763431 299 - 185818997 TTGTCTCATAACCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATGCCC-TAAAAA-GCTATGGGATCAGATAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTG-CTTACAGAATAATTTTTCTATCCAGTAAAAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTGCATCATGGGG------------AAAATAAACttt--a----agatatactcacttaccatagttaatatttaatattGGG----TATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404280 299 - 192294377 TTGTCTCATAACCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATGCCC-TAAAAA-GCTATGGGATCAGATAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTG-CTTACAGAATAATTTTTCTATCCAGTAAAAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTGCATCATGGGG------------AAAATAAACttt--a----agatatactcacttaccatagttaatatttaatattGGG----TATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5024979 299 -  30496662 TTGTCTCATAACCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATGCCC-TAAAAA-GCTATGGGATCAGATAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTG-CTTACAGAATAATTTTTCTATCCAGTAAAAATGA-T--TATCATCAAGCCCAAT-CT-TT-------------TCTTGTGCATCATGGGG------------AAAATAAACttt--a----agatatactcacttaccatagttaatatttaatattGGG----TATG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537027 299 +  21915920 TTGTCTCATAACCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAC-GGAAATTTTTGATAAACTTTCAGGAATACCC-TAAAAA-GCTATAGGATCAGATAGTGTTTACTAGTAAAGCAAATGAAAGTGTATGTATTCATA--ATTTG-CTTACAGAATAATTTTTCTATCCAGTAAAAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTGCATCATGGGG------------AAAATAAACttt--a----agatatactcacttaccatagttaatatttaatattGGG----TGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038410 295 -  90373283 TTGTCTCATAACCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCC-TAAAAA-GCTATGGGATCAGATAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTG-CTTACAGAATAATTTTTCTATTTAGTAAAAATGA-T--TATCATCAAGCCCAAT-AT-GT-------------TCTTGTGCATCATGGGG------------AAAATAAACTTT--A----AGATATACTC----ACCATAGTTAATATTTAATATTGAG----TATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557674 299 +   7543664 TTGTCTCATAACCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTTCTAAAATATTTAC-AGAAATTTTTGATAAACTTTCAGGAATACCC-TAAAAA-GCTATGGGATCAGATAATGTTTACTAGTAAAGCAAATGAAAGTGTATGTATTCATA--ATTTG-CTTACAGAATAATTTTTCTATCCAGTAAAAATGA-T--TATCATCAAGCCCAAT-AT-TT-------------TCTTGTGCATCATGGGG------------AAAATAAACttt--a----agatatactcacttaccatagttaatatttaatattGGG----TGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5314900 299 -  13750039 TTGTCTCATAGCCATCATCAACA----------------------------GAGAAGAGAAAAGAACAG-AAATACTGTGAACCAATTGCTAAAATATTTAA-GGAAATTTTTGATAAACTTTCAGGAATACCC-TAAAAA-GCTATGGGATCAGATAATGTTTACTAGTAAAGCAAATGAAGGTGTATGTATTCATA--ATTTG-CTTACAGAATAAATTTTCTATCCAGTAAAAATGA-T--TATCACCAAGCCCAAT-AT-TT-------------TCTTGTGCATCATGGGG------------AAAATCAACTTT--A----AGATATACTCACGTACCATAGTTAATATTTAATATTGGG----TATG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26574640 304 +  50472720 CTGTCTTATAACCATCATCAACA----------------------------GAGAAGAGCAAAGAGCAGAAAATATCATAAACCAATTTCTAAAATATTTGA-GAAATTTTTTTATAAACTTTCAGGAATACTT-TAAAAA-GTTTTGGGATCAGGTAATGTTTACTAGAAGAGCAAACAAAGGGGTATGTATTCATA--ATTTGCCTCATAGAATAAGTTTTCTATCCAGTAAGAAAGA-T--TAACATCAAGCCCAAT-AT-TT-------------TCTTGTTTATCACATGG------------AAAATAAACTTT--AATTTATTTATATTCATTTACCATAA-TAGTATTTAATATTGGG----TATT
i calJac3.chr21             I 984 C 0
s cebCap1.NW_016107322v1     13988979 284 -  14377064 TTGTCTTATA---ATCATCAACA----------------------------GAG-------AAGAGCAGAAAATACCATAAACCAATTTCTAAAATATTTAAGGAAATTTTTTTATAAACTTTCAGGAATACCT-TAAAAA-GCTTTGGGATCAGGTAATGTTTACTAGAAAAGCAAACAAAGGTGTATGTATTCATA--ATTTGCCTCACAGAATAATTTTTCTATCCAGT----AAGA-T--TATCATCAAGCCCAAT-AT-T----------------TTGTTTATCACATGG------------AAAATAAACTTT--A----AGTTTTATTCATTTACCATAG-TAATATTTAATATTGGG----CATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9211335 299 -   9889416 TTGTCTTATA---ACCATCAACA----------------------------GAGAAAAGCAAAGAGCAGAAAATACCATGAACCAATTTCTAAAATATTTAAGAAAAGTTTTTTATAAACTTTCAGGAATACTT-TAAAAA-GCTTTGGGATCAGGTAATGTTTACTAGAAAAGCAAACAAAGGTGAATGTATTCATA--ATTTGCCTCACAGAATAATTTTTCTATCCAGTAAGAAAGATT--TTTCATCGAGCCCAAT-AT-T----------------TT-CTTATCACATGG------------AAAATAAACTTT--A----AGTTATATTCATTTATCATAG-TAATATTTAATATTGGGTATATATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24938136 326 -  38779656 ATGTCTCACAACCATCATCAATATAAAGAATG-------ATACGCTGAGCTGAGAAGAGTGTGGGATAGAAAATATTATGGACCAATTCCTAAAATATTGAA-GAAAACATTTGAAAAAGGTTTAGAAATACTTAGAAAAA-GCTATGAGGCCAGGAAATTTTTACGAGTAAAGTAAATGAATATTTACGTATTTATAACATTTCCATCACACAATGATTTTTCAATCTAGTCAGAATCA-T--TATCA--GAGTCTAGT-TTCTT-------------TCTTATTGATCTTTGGG------------CAAATACATTTTGAA----AGTTTTATTTATTGGCTATAGTTAATCTTTACTATTAGG----TATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18081287 245 +  39895921 ------------------------------------------------------------------------------TGTATATATTTT-------TTTAA-------TTCAGAGATGTGTTCAGAAACATCT-GGAAAATGCTGTGGAGCAAGGTGATTTTTACTAATAAAGCAAGTGAAGGCTTATATATTCCTA--ATTTACCTCATATAATGATTTCTCTATTTGGTTAAGATCG-CTGTATCCTCAGACCCAGTCCT-TT-------------TCTTGTCCATCACAAAGCCATCACTTTTAAAAATCACattt--a-------tttatttattta------tttatttTCGATATTGGG----GATA
i canFam3.chr31             C 0 I 578
s dasNov3.JH578070            2498647 332 +   3081153 TTGTCTCAAAAATATCATCAATTCAAAGTGTGTGGGAGCAT----------GATAAAAACAAACAACAGAATATATTATTGCCCCATTTTTAAATTGCTTGA-GAAAAAAATCGAAAAGTGTTCAGAAATATCT-GGCAAATGCTGTAGGACCTGGTAATTTCTTCCAATTAAGCATGTAGAAGCTTCGATAATAAAA--ATTTGTCTCACATAAGTGTTCCTTTACTTGGTCAGATGCT-T--AGCCATCAAGCCAGTT-CT-TTCCTCTCAGGCCTATCTTTGCTTTCTTGGAG------------CAAATACATTTA--A----AAGTTCATATTTTTCTTAATATTACTCTTTAA-ATTATA----TATA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=81304.000000
s hg38.chr21_GL383579v2_alt    188483 10 +    201197 TTTCTACATT
s panTro5.chr21               8800656 10 +  33445071 TTTCTACATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339762 10 +  46275980 TTTCTACATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322923 10 -  13858734 TTTCTACATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337633 10 +  32716333 TTTCTACATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763730 10 - 185818997 TTTCAACATT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404579 10 - 192294377 TTTCAACATT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025278 10 -  30496662 TTTCAACATT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537326 10 +  21915920 TTTCAACATT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038705 10 -  90373283 TTTCAACACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557973 10 +   7543664 TTTCAACATT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315199 10 -  13750039 TTTCAACATT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26574944 10 +  50472720 TTTCTACATT
i calJac3.chr21             C 0 I 1
s cebCap1.NW_016107322v1     13989263 10 -  14377064 TTTCTACATT
i cebCap1.NW_016107322v1    C 0 I 71
s aotNan1.NW_018487195v1      9211634 10 -   9889416 TTTCTACATT
i aotNan1.NW_018487195v1    C 0 I 1
s otoGar3.GL873528           24938462 10 -  38779656 GTCCTAATTT
i otoGar3.GL873528          C 0 I 2
s dasNov3.JH578070            2498979  9 +   3081153 GTCCTACTT-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e canFam3.chr31              18081532 578 +  39895921 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=259118.000000
s hg38.chr21_GL383579v2_alt    188493 39 +    201197 GTGTCATGTATTGAGGTTTACATGATATACAATACAATG
s panTro5.chr21               8800666 39 +  33445071 GTGTCATGTATTGAGGTTTAAATGATATACAATACAATG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339772 39 +  46275980 GTGTCATGTATTGAGGTTTAAATGATATACAATACAATG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322933 39 -  13858734 GTGTTATGTATTGAGGTTTAAATGATATACAATACAAtg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337643 39 +  32716333 GTGTCATGTATTGAGGTTTAAATGATATACAATACAGTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763740 39 - 185818997 GTGTCATGTGTTGAGGTTTAAATGATATACAACACAGTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404589 39 - 192294377 GTGTCATGTGTTGAGGTTTAAATGATATACAACACAGTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025288 39 -  30496662 GTGTCATGTGTTGAGGTTTAAATGATATACAACACAGTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537336 36 +  21915920 GTGTCATG---TGAGGTTTAAATGATACACAACACAGTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038715 36 -  90373283 GTGTCATG---TGAGGTTTAAATGATATATAACACAGTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3557983 36 +   7543664 GTGTCATG---TGAGGTTTAAATGATACACAACACAGTG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315209 39 -  13750039 GTGTCATGTGTTGAGGTTTAAATGATATACAACCCAGTG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26574955 24 +  50472720 GTATCACGTATTGAGGTTTAAGTG---------------
i calJac3.chr21             I 1 C 0
s aotNan1.NW_018487195v1      9211645 39 -   9889416 TTGTCATTTATTGAGGTTTAAGTGATATAGAATACAATG
i aotNan1.NW_018487195v1    I 1 I 57
s otoGar3.GL873528           24938474 39 -  38779656 TTGTCATTCAttgaattttaaattatatacaatgcaccc
i otoGar3.GL873528          I 2 C 0
s dasNov3.JH578070            2498988 38 +   3081153 TTGTTACTTACCAagttaaaatttatatgcaataagtt-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=199841.000000
s hg38.chr21_GL383579v2_alt    188532 30 +    201197 atatacaatgcaatgcacttttaagtgtac
s panTro5.chr21               8800705 30 +  33445071 atatacaatgcaatgcacttttaagtgtac
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339811 30 +  46275980 atatacaatgcaatgcacttttaagtgtac
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8322972 30 -  13858734 atatacaatgcaatgcacttttaagtgtac
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337682 30 +  32716333 atatacaatgcaatgcacttttaagtgtac
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763779 30 - 185818997 atatacaatacaatgcacttttaagtgtac
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404628 30 - 192294377 atatacaatacaatgcacttttaagtgtac
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025327 30 -  30496662 atatacaatacaatgcacttttaagtgtac
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537372 30 +  21915920 atatacaatacaatgcacttttaaatgtac
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038751 30 -  90373283 atatacaatacaatgcacttttaaatgtac
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3558019 30 +   7543664 atatacaatacaatgcacttttaaatgtac
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315248 30 -  13750039 atatacaatacaatgcacttttaagtgtac
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26574979 26 +  50472720 ATATAGCATACAATGCACTTT----TGTAC
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24938513 13 -  38779656 -----------------attttaagtgtac
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2499026 15 +   3081153 --------------gta-ttctaattgtac
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=41564.000000
s hg38.chr21_GL383579v2_alt    188562 15 +    201197 aggccaa---------tgta---tttt
s panTro5.chr21               8800735 18 +  33445071 aggccaa---------tgtattttttt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339841 16 +  46275980 aggccaa---------tgta--ttttt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8323002 16 -  13858734 aggccag---------tgta--ttttt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337712 15 +  32716333 aggccaa---------tttt---tttt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763809 21 - 185818997 aggccaa----ttttttttt--ttttt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404658 21 - 192294377 aggccaa----ttttttttt--ttttt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025357 25 -  30496662 aggccaattttttttttttt--ttttt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537402 20 +  21915920 aggccaa-----tttttttt--ttttt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038781 14 -  90373283 aggccaa-----------tt--ttttt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3558049 20 +   7543664 aggccaa-----tttttttt--ttttt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315278 19 -  13750039 aggccaa------ttttttt--ttttt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26575005 14 +  50472720 AGGCCAG---------TTAT--TTT--
i calJac3.chr21             C 0 I 32
s dasNov3.JH578070            2499041 15 +   3081153 agtccaa---------tgaa--tttt-
i dasNov3.JH578070          C 0 I 20739
e micMur3.chr31              23754062 2499 +  47401472 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24938526  0 -  38779656 C

a score=1589337.000000
s hg38.chr21_GL383579v2_alt    188577 283 +    201197 ttttttagacagagtcttgctccttcaccaggctggagtgtagtggcacaatatcaacccactgcaacctccgtctcctgggttcaagctattctcctgcctcagcctcctgagtagctgggattacagg-tgtgcaccaccatgcccagctaatttttgtatttttagtagagacggggtttcaccatgttggtcaggctggtcttgaacttctgacctcgtgatctgtctgcctcagcctcccaaagtgctgggattacaggcatgagccactacgcccggt
s panTro5.chr21               8800753 283 +  33445071 ttttttagacagagtcttgctccttcaccaggctggagtgtagtggcacaatatcaacccactgcaacttccgtctcctgggttcaagctattctgctgcctcagcctcccgagtagctgggattacagg-tgtgcaccaccatgcccagctaatttttgtatttttagtagagacggggtttcaccatgttggtcaggctggtcttgaacttctgacctcgtgatctgtctgcctcagcctcccaaagtgctgggattacaggcatgagccaccatgcccggc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22339857 284 +  46275980 ttttttagacagagtcttgctccttcaccaggctggagtgtagtggcacaatatcaacccactgcaacttccgtctcctgggttcaagctattctgctgcctcagcctcccgagtagctgggattacaggttgtgcaccaccatgcccagctaatttttgtatttttagtagagacggggtttcaccatgttggtcaggctggtcttgaacttctgacctcgtgatctgtctgcctcagcctcccaaagtgctgggattacaggcatgagccaccacgcccggc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8323018 283 -  13858734 ttttttagacagagtcttgctccttcaccaggctggagtgtagtggcacaatatcaacccactgcaacctccgtctcctgggttcaagctattctcctgcctcagcctcctgagtagctgggattacagg-tgtgcaccaccatgcccagctaatttttgtatttttagtagagacggggtttcaccttgttggtcaggctggtcttgaacttctgacctcgtgatctgtctgcctcagcctcccaaagtgctgggattacaggcatgagccaccacgcccagc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9337727 283 +  32716333 ttttttggacagagtcttgctccttcgccaggctggagtgcagtggcacaatctcaacccactgcaacctccgcctcccgggttcaagctattctcctgcctcagcctcctgagtagctgggattacagg-tgtgcatcaccacacccagctaatttttgtatttttagtagagacggggtttcaccttgttggtcaggctggtcttgaacttctgacctcgtgatctgtctgcctcagcctcccaaattgctgggattacaggcatgagccaccacgcccggc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160763830 283 - 185818997 ttttttagaaggagtcttgcttcttcaccaggctggagtgcagtggcacaatctcgactcactgcaaactccacctcccgggttcaagctattctcctgcctcagcctcctgagtagcagggattacagg-tgtgtgccaccacgctcgggtaatttttgtatttttagtagagatggggtttcaccttgttggtcaggctggtctcaaactcctgacctcgtgatccacccgcctcagtctcccaaagtgctgggattacaggcgtaagccaccacacccggc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404679 283 - 192294377 ttttttagaaggagtcttgcttcttcaccaggctggagtgcagtggcacaatctcgactcactgcaaactccacctcccaggttcaagctattctcctgcctcagcctcctgagtagcagggattacagg-tgtgtgccaccacgctcgggtaatttttgtatttttagtagagatggggtttcaccttgttggtcaggctggtctcaaactcctgacctcgtgatccacccgcctcagtctcccaaagtgctgggattacaggcgtaagccaccacacccggc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025382 283 -  30496662 ttttttagaaggagtcttgcttcttcaccagactggagtgcagtggcacaatctcgactcactgcaaactccacctcccgggttcaagctattctcctgcctcagcctcctgagtagcagggattacagg-tgtgtgccaccacgctcgggtaatttttgtatttttagtagagatggggtttcaccttgttggtcaggctggtctcaaactcctgacctcgtgatccacccgcctcagtctcccaaagtgctgggattacaggcgtaagccaccatacccggc
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537422 283 +  21915920 ttttttagaaggagtcttgcttcttcaccaggctggagtgcagtggcacaatctcgactcactgcaaactccgcctcccgggttcaagctattctcctgcctcagcctcctgagcagcagggattacagg-tgtgtgccaccacgctcgggtaatttttgcatttttagtagagatggggtttcaccttgttggtcaggctggtttcaaactcctgacctcgtgatccacctgcctcagcctcccaaagtgctgggattacaggcgtaagccaccacacccggc
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20038795 283 -  90373283 ttttttagaaggagtcttgctccttcaccaggctggagtgcagtggcacaatctcgactcactgcaaactccgcctcccgggttcaagctattctcctacctcagcctcctgagtagcagggattacagg-tgtgtgccaccacgctcaggtaatttttgtatttttagtagagatggggtttcaccttgttggtcaggctggtctcgaactcctgacctcatgatccacccgcctcagcctcccaaagtgctgggattacaggcgtaagccaccatgcctggc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3558069 283 +   7543664 ttttttagaaggagtcttgcttcttcaccaggctggagtgcagtggcacaatctcgactcactgcaaactccgcctcccgggttcaagctattctcctgcctcagcctcctgagcagcagagattacagg-tgtgtgccaccacgctcgggtaatttttgtatttttagtagagatggggtttcaccttgttggtcaggctggtctcaaactcctgacctcgtgatccacctgcctcagcctcccaaagtgctgggattacaggcgtaagccaccacacccggc
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315297 283 -  13750039 ttttttagaaggagtcttgctcctccaccaggctggagtgcagtggcacaatcttgactcactgcaaactccgcctcccaggttcaagctattctcctgcctcagcctcctgagtagcagggattacagg-tgtgtgccaccacgctcgggtaatttttgtatttttagtagagatggggtttcaccttgttggtcaggctggtctcaaactcctgacctcgtgatctgcccgcctcagcctctcaaagtgctgggattacaggcataagccaccacgcccggc
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e otoGar3.GL873528           24938526   0 -  38779656 C

a score=1736307.000000
s hg38.chr21_GL383579v2_alt    188860 280 +    201197 aggccaattattttatcaaatgcatatacccatgtagccatgaacacaatcaggatatagaacttttctattataccaaatgt-atcctcattcctatttccagtaaatattttcacactctggcattcaggcaacaagtgagctttttttctgacactatagattagtcttgcttttttatgatttaatatatatcaaacc-----gtatgaa--gttttttcttattt-cttttactcagcaaaatgtttttgatgctcattcatattgtggtgtgtatctgtagtt
s panTro5.chr21               8801036 280 +  33445071 aggccaattattttatcaaatgcatacacccatgtagccatgaacacaatcaggatatagaacttttctattataccaaatgt-atcctcattcctatttccagtaaatattttcacactctggcattcaggcaacaagtgagctttttttctgacactatagattagtcttgcttttttatgatttaatatatatcaaacc-----gcatgaa--gttttttctaattt-cttttactcaggaaaatgttttcgatgctcattcatattgtggtgtgtatctgtagtt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22340141 280 +  46275980 aggccaattattttatcaaatgcatacacccatgtagccatgaacacaatcaggatatagaacttttctattataccaaatgt-atcctcattcctatttccagtaaatattttcacactctggcattcaggcaacaagtgagctttttttctgacactatagattagtcttgcttttttatgatttaatatatatcaaacc-----gtatgaa--gttttttctaattt-cttttactcaggaaaatgttttcgatgctcattcatattgtggtgtgtatctgtagtt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8323301 280 -  13858734 aggccaattattttatcaaatgcatacacccatgtagccatgaacacaatcaggatatagaacttttctattataccaaatgt-atcctcattcctatttccagtaaatattttcacactctggcattcaggcaacaagtgagctttttttctgacactacagattagtcttgcttttttatgatttaatatatatcaaacc-----atatgaa--gttttttctaattt-cttttactcagcaaaatgtttttgatgctcattcatattgtggtgtgtatctgtagtt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338010 280 +  32716333 aggccaattattttatcagatgcatgcacccatgtagccatgaacacaatcaggatatagaacttttctattataccaaatgt-atcctcattcctatttccagtaaatattttcacactctggcattcaggcaacaagtgagctttttttctgacattatagattagtcttgcctttttatgatttaatatatatcaaact-----gcatgaa--gttttttctaattt-cttttactcagcaaaatgtttttgctgctcattcatattgtggtgtgtatctgtagct
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160764113 279 - 185818997 aggccaattattttatcaaatgcatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattcctatttccagtaaatattttcacactccggcattcaggcaaccagtaaac-ttttttctgatactataaattagttttgcttgtttatgatttaatatatatcaaacc-----gtatgag--gttttttctaattt-attttactcagcaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167404962 279 - 192294377 aggccaattattttatcaaatgcatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattcctatttccagtaaatattttcacactccggcattcaggcaaccagtaaac-ttttttctgatactataaattagttttgcttgtttatgatttaatatatatcaaacc-----gtatgag--gttttttctaattt-attttactcagcaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025665 279 -  30496662 aggccaattattttatcaaatgcatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattcctatttccagtaaatattttcacactccggcattcaggcaaccagtaaac-ttttttctgatactataaattagtcttgcttgtttatgatttaatatatatcaaacc-----gtatgag--gttttttctaattt-attttactcagcaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537705 279 +  21915920 aggccaattattttatcaaatgcatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattcctatttccagtaaatattttcacactctggcattcaggcaaccagtaaac-ttttttctgatactataaattagtcttgcttgtttatgatttaatatatatcaaacc-----gtatgag--gttttttctaattt-attttactcagcaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20039078 279 -  90373283 aggccaattatttgatcaaatacatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattcctatttccagtaaatattttcacactccggcattcaggcaaccagtaaac-ttttttctgatactgtaaattagtcttgcttttttatgatttaatatatatcaaacc-----atatgag--gttttttctaattt-attttactcagcaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i chlSab2.chr2              C 0 I 118
s manLeu1.NW_012103476v1      3558352 279 +   7543664 aggccaattattttatcaaatgcatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattcctatttccagtaaatattttcacactccagcattcaggcaaccagtaaac-ttttttctgatactataaattagtcttgcttgtttatgatttaatatatctcaaacc-----gtatgag--gttttttctaattt-attttactcagcaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315580 270 -  13750039 aggccaataattttatcaaatacatgcacccatgtagccatgaacacaatcaggatacagaacttttctgttataccaaatgt-atcctcattc---------gtaaatattttcacactccggcattcaggcaaccagtgaac-ttttttctgatactatagattagtcttgcttttttatgatataatatacatcaaact-----gtataag--gttttttctaattt-attttactcaccaaaatgtttttgatgcttatttatattgtggtgtgtatctgtagtt
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24938526 285 -  38779656 aggccaattattatgtcaaatgccca-actcatgtagccaggagcacaattaggatatagaacttttctattataccaaatgtaaccctcattcatacttccagtcaaaatttccccactcctggcccaaggtgaccagtgaac--tttttctaccactatagattggttttactcttttataacttaatataaatgaaatccaatggtatgaattattttgtgtagtttaaattcacttagc-aaatgtttttgatactcacccatattgttgggtatattagtagtt
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=26928.000000
s hg38.chr21_GL383579v2_alt    189140 5 +    201197 tgtat
s panTro5.chr21               8801316 5 +  33445071 tgtat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22340421 5 +  46275980 tgtat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8323581 5 -  13858734 tgtat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338290 5 +  32716333 tgtat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160764392 5 - 185818997 tgtat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167405241 5 - 192294377 tgtat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025944 5 -  30496662 tgtat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537984 5 +  21915920 tgtat
i cerAty1.NW_012002954v1    C 0 C 0
s manLeu1.NW_012103476v1      3558631 5 +   7543664 tgtat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315850 5 -  13750039 tgtat
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24938811 5 -  38779656 gatat
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e chlSab2.chr2               20039357 118 -  90373283 I

a score=961659.000000
s hg38.chr21_GL383579v2_alt    189145 176 +    201197 catatgattgctgagaagtgtttccttatatatagatttgtcacagttttcttattttcctgctgatggaca-ttatgt--ttttccagtttttgattatttt-aataaactgtttgtaaactttcatgtacaaatatttttgtggacataca------tttcatttctctttaatcaaaattgag-----------------------------------------------------------------------------------------------------------------------------------------
s panTro5.chr21               8801321 176 +  33445071 catatgattgctgagaagtgtttccttatatatagatttatcacagttttcttattttcctgctgatggaca-ttatgt--ttttccagtttttgattatttt-aataaactgtttgtaaactttgatgtacaaatatttttgtggacataca------tttcatttctctttaatcaaaattgag-----------------------------------------------------------------------------------------------------------------------------------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22340426 176 +  46275980 catatgattgctgagaagtgtttccttatatatagatttatcacagttttcttattttcctgctgatggaca-ttatgt--ttttccagtttttgattatttt-aataaactgtttgtaaactttgatgtacaaatatttttgtggacataca------tttcatttctctttaatcaaaattgag-----------------------------------------------------------------------------------------------------------------------------------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8323586 172 -  13858734 catatgattgctgagaagtgtttccttatatatagatttatcacagttttcttattttcctgctgatggaca-ttacgt--ttttccagtttttgattatttt-aataaac----tataaactttcacgtacaaatatttttgtggacatata------tttcatttctctttaatcaaaattgag-----------------------------------------------------------------------------------------------------------------------------------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338295 176 +  32716333 catatgattgctgagaagtgtttccttatatatagatttatcacagttttcttattttcctgctgatggaca-ttgtat--ttttccagtttttgattatttt-aataaactgttcgtaaactttcatgtacaaatatttttgtggacatata------tttcatttctctttaatcaaaattgag-----------------------------------------------------------------------------------------------------------------------------------------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160764397 177 - 185818997 catgtgattgctgagaagtgtttccttatatacagatttatcaccgttttcttattttcctgctgatggacatttgcat--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttcatgtgcaaatatttttacggacatata------tttcatttctttttaataaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167405246 177 - 192294377 catgtgattgctgagaagtgtttccttatatacagatttatcaccgttttcttattttcctgctgatggacatttgcat--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttcatgtgcaaatatttttacagacatata------tttcatttctttttaataaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5025949 177 -  30496662 catgtgattgctgagaagtgtttccttatatacagatttatcaccgttttcttattttcctgctgatggacatttgcgt--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttcatgtgcaaatatttttacggacatata------tttcatttctttttaataaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13537989 177 +  21915920 catgtgattgctgagaagtgtttccttatatacagatttatcaccgttttcttattttcctgctgatggacatttgcat--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttcatgtgcaaatatttttacggacatata------tttcatttctttttaataaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20039475 177 -  90373283 catgtgattgctgagaagTGTTTCCTTAtatacagatttattacaattttcttatattcttgctgatggacatttgcat--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttcatgtgcaaatatttttgtggacatata------tttcatttctttttaataaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i chlSab2.chr2              I 118 C 0
s manLeu1.NW_012103476v1      3558636 177 +   7543664 catgtgattgctgagaagtgtttccttatatgcagatttatcactgttttcttattttcctgctgatggacatttgcat--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttgatgtgcaaatatttttacggacatata------tttcatttctttttaataaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5315855 174 -  13750039 catgtgattactgagaagtgtttccttatatacagatttatcacaattttcttattttcctgctgatggacatttgctt--ttttccagtgtttgattatttt-aatcaaccagttgtaaactttcatgtgcaaatatttttatggacatata------tttcatttctttt---taaaaatctag-----------------------------------------------------------------------------------------------------------------------------------------
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24938816 323 -  38779656 catcttatttctgagaagcattttcttgtataaggtttcaatacaatttacctgtcttaatgctgatggacatttttattatttccaaatttttgattattttaaataaagctgttataaatcttcacataccaatctatttgtggacatatacactattttcatctctcctggataaaactctaagggtaaaattacaagccgggcacagtggcccatgctttaatcctagcactctggaggaccaaggcaggtgaattgcctgagctcaggagttcaagactagcctgagcaagaacaagacctcatttctaaaaatcgtg
i otoGar3.GL873528          C 0 I 161
e micMur3.chr31              23754062 2499 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=1850077.000000
s hg38.chr21_GL383579v2_alt    189321 326 +    201197 aagtagaaatgcaaggtcatatattaaggatggatttaactttctagaaactggcaaatagtttatt-aaagtggttgcaccatttttacaaccccactagcagcgtgtgagagttcccatggcattacaga-----tacttaatactcgcaatg----attattactat---tgtcattttaatgtgtgattagtggcatcttatttacctctcacttatttgactaacatttagaaaaatgttcttatatatttaCACAAATCATTTTAAGATGAATG-TTTATTTGTTACCAATGAGTTGATGGTA-TTTGACGATTTACACAAATATATTGCTGTGC
s panTro5.chr21               8801497 326 +  33445071 aagtagaaatgcaaggtcatatattaaggatggatttaactttctagaaactggcaaatagtttatt-aaagtggttgcaccatttttacaaccccactagcagcgtatgagagttcccatggcattacaga-----tacttaatcctcgcaatg----attattactat---tgtcattttaatgtgtgattagtggcatcttgtttacctctcacttatttgactaacatttagaaaaatgttcttatatatttatGCAAATCATTTTAAGATGAATG-TTTATTTGTTACCAATGAGTTGATGGTA-TTTGACGATTTACACAAATATATTGCTGTGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22340602 326 +  46275980 aagtagaaatgcaaggtcatatattaaggatggatttaactttctagaaactggcaaatagtttatt-aaagtggttgcaccatttttacaaccccactagcagcgtatgagagttcccatggcattacaga-----tacttaatcctcgcaatg----attattactat---tgtcattttaatgtgtgattagtggcatcttgtttacctctcacttatttgactaacatttagaaaaatgttcttatatatttaCGCAAATCATTTTAAGATGAATG-TTTATTTGTTACCAATGAGTTGATGGTA-TTTGACGATTTACACAAATATATTGCTGTGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8323758 330 -  13858734 aagtagaaatgcaaggtcatatattaaggatggatttaactttctagaaactggcaaatagtttatt-aaagtggttgcaccatatttacaaccccactagcagtgtgtgagagttcccatggcattacaga-----tacttaatcctcgcaatgattaattattactat---tgtcattttaatgtgtgattagtggcatcttgtttacctctcacttatttgactaacatttagaaaaatgttcttatatatttaCGCAAATCATTTTAAGATGAATG-TTTATTTGTTACCAATGAGTTGATGGTA-TTTGACGATTTACACAAATATATTGCTGTGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338471 325 +  32716333 aagtagaaatgcaaggtcatat-ttaaggatggatttaactttctagaaactggcaaatagtttatt-aaagtggttgcaccacttttacaaacccactagcagcgtatgagagttcccatggcattacaga-----tacttaatacttgcaatg----attattactat---tgtcattttaatgtgggattactggcatcttgttTACCTCTCACTTATTTTACTAACATTTAGAAAAATGTTCTTACATATTTATGCAAATCACTTTAAGATAAATG-TTTATTTGTTACCAATGAGTTGATGGTA-TTTGATGATTTACGCAAATATATTGCTGTGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160764574 323 - 185818997 gggtagaaatgcaaggtcata-attaaggatgggtttaactttacggaaagtggcaattagtttgctaaaagtggttgcaccatttttacaaccctgctggcagtctgtgagagttcccatggcattacaaa---------taatattcacaatg----attattgctat---tgtcattttaatgtgtgattagtggcatctTGCTTACCTCTCACTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAAGGAGTTGATGGTA-TTTGATGATTTATGCAAACATATTGCTGTGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167405423 323 - 192294377 gggtagaaatgcaaggtcata-attaaggatgggtttaactttacggaaagtggcaattagtttgctaaaagtggttgcaccatttttacaaccctgctggcagtctgtgagagttcccatggcattacaaa---------taatattcacaatg----attattgctat---tgtcattttaatgtgtgattagtggcatctTGCTTACCTCTCACTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAAGGAGTTGATGGTA-TTTGATGATTTATGCAAACATATTGCTGTGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5026126 323 -  30496662 gggtagaaatgcaaggtcata-attaaggatgggtttaactttacagaaagtggcaattagtttgctaaaagtggttgcaccatttttacaaccctgctggcagtctgtgagagttcccatggcattacaaa---------taatattcacaatg----attattgctat---tgtcattttaatgtgtgattagtggcatctTGCTTACCTCTCACTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAAGGAGTTGATGGTA-TTTGATGATTTATGCAAACATATTGCTGTGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13538166 323 +  21915920 gggtagaaatgcaaggtcata-attaaggacgggtttaactttacggaaagtggcaattagtttgctaaaagtggttgcaccatttttacaaccctgctggcagtctgtgagagttcccatggcattacaaa---------taatattcacaatg----attattgctat---tgtcattttaatgtgtgattagtggcatctTGCTTACCTCTCACTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAATGAGTTGATGGTA-TTTGATGATTTATGCAAACGTATTGCTGTGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20039652 321 -  90373283 gggtagaaatgcaaggtcata-attaaggatgggtttaactttacggaaagtggcaattagtttgctaaaagtggttgcaccatttttacaaccgtgctggcagtctgtgagagttcccatggcattacaaa---------taatattcgcaatg----attattgctat---tgtcattttaatGTGTGATTAGTGGCATCTTGCTTACCTCTCAGTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAATGAGTTGATGGCA-TTTGATGATTTATGCAAAC--ATTGCTGTGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3558813 323 +   7543664 gggtagaaatgcaaggtcata-attaaggacgggtttaactttacggaaagtggcaattagtttgctaaaagtggttgcaccatttttacaaccctgctggcagtctgtgagagttcccatggcattacaaa---------taatattcacaatg----attattgctat---tgtcattttaatgtgtgattagtggcatctTGCTTACCTCTCACTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAATGAGTTGATGGTA-TTTGATGATTTATGCAAACGTATTGCTGTGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5316029 323 -  13750039 gggtggaaatgcaaggtcata-attaaggatgtgtttaactttacggaaagtggcaattagtttgctaaaagtggttacaccatttttagaaccctgctggcagtctgtgagagttcccatggcattacaaa---------taatattcgcaatg----attattgctat---tgtcattttaatGTGTGATTAGTGGCATCTTGCTTACCTCTCACTTATTTTACTAACATTTAGGAAAATGTTCTTATATATTTATGCAAATTATTTTAAGATAAATGTTTTATTTGTTACCAATGGGTTGATGGTA-TTTGATGATTTATGCAAACATATTGCTGTGC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24939300 327 -  38779656 aagtagaactacaattttctgtattaagggtgcatttaacttt-taaaaacctataagccatttacc-aaggcgtttgtacc-cttctacaccctcaccagcagtgtatgagagttctgctgatgttacacaccacacagacgatattgtcagtg----gttattattataactaccactt-----agtgcttagtggtatttcactTA-CTCCCACTTATTTAAGTTGCATTTGGTAGAATGCTCtcatatatttatacaaagtgtttttaagcaaatt-tttatttgctaccaatgatcttatgttacctcgacaatttatggaaatatattactgtgt
i otoGar3.GL873528          I 161 C 0
e micMur3.chr31              23754062 2499 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=1273264.000000
s hg38.chr21_GL383579v2_alt    189647 191 +    201197 GTGAATTAATGTTTCTTTTTGATTATGGTAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATCTTTACTACTACTGTTAAAT--GAGTTACcagttgtttaaca--tactatatctcagatattcttccacgggaacacatattaactcacttgattttcagaacaacTGAGTCATAG
s panTro5.chr21               8801823 191 +  33445071 GTGAATTAATGTTTCTTTTTGATTATGGTAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATCTTTACTACTACTGTTAAAT--GAGTTACcacttgtttaaca--tactatagctcagatattcttccacgggaacacatattaactcacttgattttcagagcaacTGAGTCATAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22340928 191 +  46275980 GTGAATTAATGTTTCTTTTTGATTATGGTAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATCTTTACTACTACTGTTAAAT--GAGTTACcacttgtttaaca--tactatatctcagatattcttccacgggaacacatattaactcacttgattttcagagcaacTGAGTCATAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8324088 191 -  13858734 ATAAATTAATGTTTCTTTTTGATTATGGTAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTGCAACAATCTTTACTACTACTGTTAAAT--GAGTTACcacttgtttaaca--tactatatctcagatattcttccacgggaacacatattaactcacttgattttcagaacaacTGAGTCATAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338796 191 +  32716333 GTGAATTAATGTTTCTTTTTGATTATGGTAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATGTTTACTACTACTGTTAAAT--GAGTTACcacttgtttaaca--tactatatctcagatattcttccacgggaacacatattaactcacttgattttcagaacaacTGAGTCATAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160764897 184 - 185818997 GTGCATTAATGTTTCATTTTAAT----GCAATTTTCAAAATTAACCACTATCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--GAGTTACCACTTGTTTAAct--tactatatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaacTGAGTCGTTG
i rheMac8.chr3              C 0 I 13
s macFas5.chr3              167405746 184 - 192294377 GTGCATTAATGTTTCATTTTAAT----GCAATTTTCAAAATTAACCACTATCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--gagttaccacttgtttaact--tactatatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaacTGAGTCGTTG
i macFas5.chr3              C 0 I 4
s macNem1.NW_012015021v1      5026449 184 -  30496662 GTGCATTAATGTTTCATTTTAAT----GCAATTTTCAAAATTAACCACTATCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--GAGTTACCACTTGTTTAAct--tactatatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaacTGAGTCGTTG
i macNem1.NW_012015021v1    C 0 I 13
s cerAty1.NW_012002954v1     13538489 184 +  21915920 ATGCATTAATGTTTCATTTTAAC----ACAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--GAGTTACCACTTGTTTAAct--tactatatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaacTGAGTCGTAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20039973 184 -  90373283 ATGCATTAATATTTCATTTTAAT----GCAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--GAGTTACcacttgtttaaca--tactatatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaactgagttgtag
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3559136 184 +   7543664 ATGTATTAATGTTTCATTTTAAC----ACAATTTTCAAAATTAATCCCTATCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--GAGTTACCACTTGTTTAAct--tactatatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaacTGAGTCGTAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5316352 181 -  13750039 ATGCAT---TGTTTCATTTTAAC----ACAATTTTCAAAATTAACCCCTTTCTTCTCATATTTCTTGATGTTCAACAATCTT---TACTACTGTGAAAT--GAGTTACcacttgtttaaca--tactgtatctcagatattcttccacgtgaacacatattaacttacttgattttcagaacaacTGAGTCATAG
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23756561 192 +  47401472 gtgaattaatatttcattttaattatggtaaTTTAAAAAAGTAATCCCTATCTTCTCATATTTCTAGATGTTAAACAATCTT---TATTCCTGCTAaataagagttactacttatttaacatttactatgtctcaaacactcttccaagtgaacacatatttactcactggattctcaaagcaacTGAGTAATGG
i micMur3.chr31             I 2499 C 0
s otoGar3.GL873528           24939627 192 -  38779656 gtgaattaatatttcattttaattatGGCAATTTTCAAAATTAATCCCCATGTTCTCATATTTCTTGATGTTAAACATTGTT---TATTCCTGTTAAGTAAGAGTTTCcacttgtttaacacttcttatttcccaaacactcttccaagtgaacacgtattaactcacttgattctcaaaacaaGTGAGTCGTGG
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=31653.000000
s hg38.chr21_GL383579v2_alt    189838 10 +    201197 AGAAGTTTAG
s panTro5.chr21               8802014 10 +  33445071 AGAAGTTTAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341119 10 +  46275980 AGAAGTTTAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8324279 10 -  13858734 AGAAGTTTAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338987 10 +  32716333 AGAAGTTTAG
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167405934  9 - 192294377 TCATAATTA-
i macFas5.chr3              I 4 C 0
s cerAty1.NW_012002954v1     13538673 10 +  21915920 AGAAATTTAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20040157 10 -  90373283 ataAATTTAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3559320 10 +   7543664 AGAAATTTAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5316533 10 -  13750039 AGAAATTTAA
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23756753 10 +  47401472 AGAAATTAAG
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24939819 10 -  38779656 AGAAATTAAG
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2499056 20739 +   3081153 I
e macNem1.NW_012015021v1      5026633 13 -  30496662 I
e rheMac8.chr3              160765081 13 - 185818997 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=242501.000000
s hg38.chr21_GL383579v2_alt    189848 33 +    201197 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGt
s panTro5.chr21               8802024 33 +  33445071 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341129 33 +  46275980 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8324289 33 -  13858734 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9338997 33 +  32716333 AAAGTTGAATAAATGTGTTTGTCTTACTGTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160765094 33 - 185818997 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGt
i rheMac8.chr3              I 13 C 0
s macFas5.chr3              167405943 33 - 192294377 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5026646 33 -  30496662 AAAGTTGAATAAATGTGTTTGTTTTACTGTTGt
i macNem1.NW_012015021v1    I 13 C 0
s cerAty1.NW_012002954v1     13538683 33 +  21915920 AAAGTTGAATAAATGTGTGTGTTTTACTGTTGt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20040167 33 -  90373283 AAAGTTGAATAAATGTGTTTGTTTTACTGCTGt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3559330 33 +   7543664 AAAGTTGAATAAATATGTGTGTTTTACTGTTGt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5316543 33 -  13750039 AAAGTTGAATAAATGTGTTTGCTTTACTGTGGt
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23756763 33 +  47401472 AAAGTTGGCTAAATGTGTTTGTTTTACTGTTGT
i micMur3.chr31             C 0 I 539
s otoGar3.GL873528           24939829 33 -  38779656 AAAATTGGCTAAGTGTGTTCATGTCACTGTTAC
i otoGar3.GL873528          C 0 I 2
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=2888090.000000
s hg38.chr21_GL383579v2_alt    189881 478 +    201197  
s panTro5.chr21               8802057 478 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341162 478 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8324322 484 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9339030 467 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160765127 476 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167405976 476 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5026679 476 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13538716 475 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20040200 477 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3559363 475 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5316576 473 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24939864 508 -  38779656  
i otoGar3.GL873528          I 2 C 0
e micMur3.chr31              23756796 539 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=282019.000000
s hg38.chr21_GL383579v2_alt    190359 39 +    201197 TTGCCACAGGGGAAAGTAAGCATCCCAGTCGTGTCAATC
s panTro5.chr21               8802535 39 +  33445071 TTGCCACAGGGGAAAGTAAGCATCCCAGTCGTGTCAATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341640 39 +  46275980 TTGCCACAGGGGAAAGTAAGCATCCCAGTCGTGTCAATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8324806 39 -  13858734 TTGCCACAGGGGAAAGTAAGCATCCCAGTCATGTCAATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9339497 38 +  32716333 TTGCCAC-GGGGAGAGTAATCATCCCAGTCATGTCAATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160765603 39 - 185818997 TTGCCACAGGGGAGAGTAAGCCTCCTAGTCATGTCAATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167406452 39 - 192294377 TTGCCACAGGGGAGAGTAAGCCTCCTAGTCATGTCAATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5027155 39 -  30496662 TTGCCACAGGGGAGAGTAAGCCTCCTAGTCATGTCAATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13539191 39 +  21915920 TTGCCACAGGAGAGAGTAAGCCTCCTAGTCATGTCAATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20040677 39 -  90373283 TTGCCACGGGGGAGAGTAAGCCTCCCAGTCATGTCAATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3559838 39 +   7543664 TTGCCACAGGGGAGAGTAAGCCTCCTAGTCATGTCAATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5317049 39 -  13750039 TTGCCACTGGGGAGAGTAAGCCTCCCAGTCATGTCAATC
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23757335 39 +  47401472 TTGCCACAGGGGAAAGTAAACATCTCAGTCATGCCAATC
i micMur3.chr31             I 539 I 1047
s otoGar3.GL873528           24940372 39 -  38779656 TTGCCACAGAACAAAGTAAACTCCCCAGTCATGCCAATC
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=999988.000000
s hg38.chr21_GL383579v2_alt    190398 170 +    201197 ACCATA---CTTCTTTCCCACATTGACATTTACTGACCGATCT---TAGTCTTTCCCCCGGAATTTTATATACAGAGACCAGATGTAAGAAATA---GTTCTCTATAGAGTCCAAAACAAAACAAAAACAAAAACCAAGAGAGTGTAAACCTGGAACATTATATGATTTTGTCTCCCAT------
s panTro5.chr21               8802574 170 +  33445071 ACCATA---CTTCTTTCCCACATTGACATTTATTGACCGATCT---TAGTCTTTCCCCCGGAATTTTATATACAGAGACCAGATGTAAGAAATA---GTTCTCTATGGAGTCCAAAACAAAACAAAAACAAAAACCAAGAGGGTGTAAACCTGGAACATTATATGATTTTGTCTCCCAT------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341679 170 +  46275980 ACCATA---CTTCTTTCCCACATTGACATTTATTGACCGATCT---TAGTCTTTCCCCCGGAATTTTATATACAGAGACCAGATGTAAGAAATA---GTTCTCTATGGAGTCCAAAACAAAACAAAAACAAAAACCAAGAGGGTGTAAACCTGGAACATTATATGATTTTGTCTCCCAT------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8324845 170 -  13858734 ACCATA---CTTCTTTCCCACATTGACATTTACTGACCGATCT---TAGTCTTTCACCCGGAATTTTATATACAGAGACCAGATGTAAGAAATA---GTTCTCTATGGAGTCCAAAACAAAACAAAAACAAAAACCAAGAGTGTGTAAACCTGGAACATTCTATGATTTTGTCTCCCAT------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9339535 173 +  32716333 ACCGTACTTCTTCTTTCCCACATTGACATTTACTGACCGATCT---TAGTTTTTCCCCAGGATTTTTATATACAGAGACCAGATGTAAGAAATA---GTTCTCTATGGAGTTCAGAACAAAACAAAAACAAAAACCAAGAGTGTGTAAACCTGGAACATTCTATGAttttgtctcccat------
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160765642 170 - 185818997 ACCATA---CTTCTTTCCCACACTGACATTTACTGACTAATCT---TAGTTTTTCCCCTGGATTTTTATATACGGAGACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCAAAACAAAACAAAAACAAAAACCAAGAGTGTATAAATCTGGAACATTCTATGATTTTGCCTCCCAT------
i rheMac8.chr3              C 0 I 10
s macFas5.chr3              167406491 170 - 192294377 ACCATA---CTTCTTTCCCACACTGACATTTACTGACTAATCT---TAGTTTTTCCCCTGGATTTTTATATACGGAGACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCAAAACAAAACAAAAACAAAAACCAAGAGTGTATAAACCTGGAACATTCTATGATTTTGCCTCCCAT------
i macFas5.chr3              C 0 I 10
s macNem1.NW_012015021v1      5027194 170 -  30496662 ACCATA---CTTCTTTCCCACACTGACATTTACTGACTAATCT---TAGTTTTTCCCCTGGATTTTTATATATGGAGACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCAAAACAAAACAAAAACAAAAACCAAGAGTGTATAAACCTGGAACATTCTATGATTTTGCCTCCCAT------
i macNem1.NW_012015021v1    C 0 I 10
s cerAty1.NW_012002954v1     13539230 170 +  21915920 ACCATA---CTTCTTTCCCACACTGACATTTACTGACTAATCT---TAGTTTTTCCCCTGGATTTTTATATACGGAGACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCAAAACAAAACAAAAACAAAAACCAAGAGTGTATAAACCTGGAACATTCTATGATTTTGCCTCCCAT------
i cerAty1.NW_012002954v1    C 0 I 10
s chlSab2.chr2               20040716 170 -  90373283 ACCATA---CTTCTTTCCCACATTGACATTTACTGACTAATCT---TAGTTTTTCCCCTGGATTTTTATATACGGATACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCTAAACAAAACAAAAACAAAAACCAAGAGTGTATAAACCTGGAACATTCTATGATTTTGCCTCCCAT------
i chlSab2.chr2              C 0 I 10
s manLeu1.NW_012103476v1      3559877 170 +   7543664 ACCATA---CTTCTTTCCCACATTGACATTTACTGACTAATCT---TAGTTTTTCCCCTGGATTTTTATATACGGAGACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCAAAACAAAACAAAAACAAAAACCAAGAGTGTATAAACCTGGAACATTCTATGATTTTGCCTCCCAT------
i manLeu1.NW_012103476v1    C 0 I 10
s colAng1.NW_012120598v1      5317088 169 -  13750039 ACCATA---CTTCTTTCCCACATTGACATTTACTGACCAATCT---TAGTTTTTCCCCTGGATTTTTATATATGGAGACCAGATGCAGGAAATA---GTTCTCTGTGGGGTCCAAAAC-AAACAAAAACAAAAACCAAGAGAGTATAAACCTGGAACATTCTATGATTTTGCCTCCCAT------
i colAng1.NW_012120598v1    C 0 I 10
s otoGar3.GL873528           24940411 171 -  38779656 TCTGCA---CTCTTGCCCCAATC------TCACTGGCTAATCTATCCGACTTATCCCTTGGA-TTTCACATGCGCAGACTAGATGCAGGGAATGTTCATTCTCTCTGGGGATCAAAAC-AAACAAAACCACTG---AAGGAAACATAAAATTGGAACATTCTATTATTATGCTTCCTGTCTTCTT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23757374 1047 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=360492.000000
s hg38.chr21_GL383579v2_alt    190568 76 +    201197 CTCTCTGCTTCATGAAGGAAA-------TCAGTACATGAAAAATAAAGCTAATTTAG--------AAAAAAAA-TCAGGTTATTTGTATTGG
s panTro5.chr21               8802744 76 +  33445071 CTCTCTGCTTCATGAAGGAAA-------TCAGTACATGAAAAATAAAGCTAATTTAG--------AAAAAAAA-TCAGGTTATTTGTATTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341849 76 +  46275980 CTCTCTGCTTCATGAAGGAAA-------TCAGTACATGAAAAATAAAGCTAATTTAG--------AAAAAAAA-TCAGGTTATTTGTATTGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8325015 76 -  13858734 CTCTCTGCTTCATGAAGGAAA-------TCAGTAAATGAAAAATAAAGCTAATTTAG--------AAAAAAAA-TCAGGTTATTTGTATTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160765822 83 - 185818997 CTCTCTGTTTCATGAAGGAAATCAATTTTCAGTACACGAAAAATAAAGCTAATTTAG--------AAAAAAAATTCAGGTTATTTGTA-TGG
i rheMac8.chr3              I 10 C 0
s macFas5.chr3              167406671 83 - 192294377 CTCTCTGTTTCATGAAGGAAATCAATTTTCAGTACACGAAAAATAAAGCTAATTTAG--------AAAAAAAATTCAGGTTATTTGTA-TGG
i macFas5.chr3              I 10 C 0
s macNem1.NW_012015021v1      5027374 83 -  30496662 CTCTCTGTTTCATGAAGGAAATCAATTTTCAGTACATGAAAAATAAAGCTAATTTAG--------AAAAAAAATTCAGGTTATTTGTA-TGG
i macNem1.NW_012015021v1    I 10 C 0
s cerAty1.NW_012002954v1     13539410 83 +  21915920 CTCTCTGTTTCATGAAGGAAATCAATTTTCAGTACACGAAAAATAAAGCTAATTTAG--------AAAAAAAATTCAGGTTATTTGTA-TGG
i cerAty1.NW_012002954v1    I 10 C 0
s chlSab2.chr2               20040896 82 -  90373283 CTCTCTGTTTCATG-AGGAAATCAATTTTCAGTACATGAAAAATAAAGCTAATTTAG--------AAAATAAATTCAGGTTATTTGTA-TAG
i chlSab2.chr2              I 10 C 0
s manLeu1.NW_012103476v1      3560057 81 +   7543664 CTCTCTGTTTCATGAAGGAAATCAATTTTCAGTACATG-AAAATAAAGCTAATTTAG--------AAAAAAATTTCAGG-TATTTGTA-TGG
i manLeu1.NW_012103476v1    I 10 C 0
s colAng1.NW_012120598v1      5317267 83 -  13750039 CTCTCTGTTTCATGAAGGAAATCAATTTTCAGTACATGAAAAATAAAGCTAATTTAG--------AAAAAAAATTCAGGTTATTTGTA-TAG
i colAng1.NW_012120598v1    I 10 C 0
s otoGar3.GL873528           24940582 91 -  38779656 CTCTCTATTTCATAAAAGAAGCAATTTTTCAGTACATG-GGAACAAAGTTAACTCAGGAAAGAATAAAAAAACTCTAACTTGTTTGTGGTGG
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23757374 1047 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e nomLeu3.chr25               9339708  0 +  32716333 C

a score=939687.000000
s hg38.chr21_GL383579v2_alt    190644 205 +    201197 GGCATGtgatatggtttggctctgtgtacccacccacatctcatgacaaatggtaatcctcattgttggaggggggtcctgatgggaggtgatttatttatggaggtagacgtcccctttgtttttcttatgatagtgagtgagtttccacaagatatggttgttggaaagtgtgtagcacctcctttggtctctcttcttctgg
s panTro5.chr21               8802820 205 +  33445071 GGCATGtgatatggtttggctctgtgtacccacccacatctcatgacaaatggtaatcctcattgttggaggggggtcctgatgggaggtgatttatttatggaggtagacatcccctttgtttttcttatgatagtgagtgagttttcaagagatatggttgttggaaagtgtgtagcacctcctttggtctctcttcttctgg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22341925 205 +  46275980 GGCATGtgatatggtttggctctgtgtacccacccacatctcatgacaaatggtaatcctcattgttggaggggggtcctgatgggaggtgatttatttatggaggtagacgtcccctttgtttttcttatgatagtgagtgagttttcaagagatatggttgttggaaagtgtgtagcacctcctttggtctctcttcttctgg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8325091 203 -  13858734 GGTATGtgatatggtttggctctgtgtacccacccaaatctcatgacaaattgtaatcctcattgttggaggagggtcctgatgggaggtgatttacatatg--ggtagacttcccctttgtttttctcatgatagtgagtgagttttcacgagatatggttgttgcaaagtgtgtagcacctcctttggtctctcttcttctgg
i gorGor5.CYUI01015003v1    C 0 C 0
s rheMac8.chr3              160765905 205 - 185818997 GGTATGtgatatggtttggctctacgtacccatccaaatctcatgacgagttgtaatcctcaatgttggaggagggtcctgatgggaaatgattgacttatggaggtagagatcccctttgtttttctcatggtagtaagtgagttttcacgagatatggttgtttgaaagtgcgtagcacctcctttggtctctcttcctctgg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167406754 205 - 192294377 GATATGtgatatggtttggctctacgtacccatccaaatctcatgacgagttgtaatcctcaatgttggaggagggtcctgatgggaaatgattgacttatggaggtagagatcccctttgtttttctcatggtagtaagtgagttttcacgagatatggttgtttgaaagtgcgtagcacctcctttggtctctcttcctctgg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5027457 205 -  30496662 GGTATGtgatatggtttggctctatgtacccatccaaatctcatgacgagttgtaatcctcaatgttggaggagggtcctgatgggaaatgattgacttatggaggtagagatcccctttgtttttctcatggtagtaagtgagttttcacgagatatggttgtttgaaagtgcgtagcacctcctttggtctctcttcctctga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13539493 205 +  21915920 GATATGtgatatggtttggctctacgtacccatccaaatctcatgacgagttgtaatcctcaatgttggaggagggtcctgatgggaaatgattgacttatggaggtagacttcccctttgtttttctcatggtagtgagtgagttttcacgagatatggttgtttgaaagtgtgtagcacctcctttggtctctcttcctctgg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20040978 205 -  90373283 GGTATGtgatatggtttggctctgtgtacacatccaaatctcatgatgagttgtaatcctcagtgttggaggagggtcctgatgggaaatgattgacttatggaggtagacttcccctttgtttttctaatggtagtgagtgagttttcatgagatatggttgtttgaaagtgtgtagcacctcttttggtctctcttcctctga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3560138 205 +   7543664 GGTATGtgatatggtttggctctatgtacccatccaaatctcatgacaagttgtaatcctcagtgttggaggagggtcctgatgggaaatgattgacttatggaggtagacttcccctttgtttttctcatggtagtgagtgagttttcacgagatatggttgtttgaaagtgtgtagcacctcttttggtctctcttcctctgg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5317350 205 -  13750039 GGTATGtgatatggtttggctctgtgtacccatccaaatctcatgatgagttgtaatcctcaatgttggaggaggatcctgatgggaaatgattgacttacgcaggtagacttcccctttgtttttctcacggtagtgagtgagttttcacgagatatggttgtttgaaagtgtgtagcacctcttttggtttctcttcctctgg
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23757374 1047 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e otoGar3.GL873528           24940673   0 -  38779656 C
e nomLeu3.chr25               9339708   0 +  32716333 C

a score=12283044.000000
s hg38.chr21_GL383579v2_alt    190849 2194 +    201197  
s panTro5.chr21               8803025 2195 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22342130 2195 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8325294 2188 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9339708 2192 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160766110 2202 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167406959 2202 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5027662 2201 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13539698 2198 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20041183 2203 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3560343 2199 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5317555 2214 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23757374 1047 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273   71 -  14377064 I
e canFam3.chr31              18081532  578 +  39895921 I
e aotNan1.NW_018487195v1      9211684   57 -   9889416 I
e calJac3.chr21              26575019   32 +  50472720 I
e saiBol1.JH378168            8732566    0 +  13128814 C
e otoGar3.GL873528           24940673    0 -  38779656 C

a score=3268059.000000
s hg38.chr21_GL383579v2_alt    193043 534 +    201197  
s panTro5.chr21               8805220 534 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22344325 534 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8327482 534 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9341900 536 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160768312 533 - 185818997  
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167409161 533 - 192294377  
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5029863 533 -  30496662  
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13541896 534 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20043386 534 -  90373283  
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3562542 534 +   7543664  
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5319769 531 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24940673 529 -  38779656  
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23757374 1047 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=1145207.000000
s hg38.chr21_GL383579v2_alt    193577 166 +    201197 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGATACAAAGGCTAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACACATCTGTTTTACTTCTGTAGCTGTAGGCATTCCTGTTGCTTACAACCAATGAACTCTGCCTT
s panTro5.chr21               8805754 164 +  33445071 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGATACAAAGGCTAATACAGTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACACATCTGTTTTACTTCTATAGCTGTAGGCATTCCTCTTGCTTACAACCAATGAACTCTGCC--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22344859 164 +  46275980 AGTTGTTCCTGTTGCCAATTATAATTATGAA-ATCCCAGATACAAAGGCTAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACACATCTGTTTTACTTCTATAGCTGTAGGCATTCCTATTGCTTACAACCAATGAACTCTGCC--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328016 166 -  13858734 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGATACAAAGGCTAATACATTATA-TGTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACACATCTGTTTTACTTCTCTAGCTGTAGGCATTCCTATTGCTTACAACCAATGAACTCTGCCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9342436 166 +  32716333 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGATACAAAGGCTAATACATTATA-TTTTTTGCTTTAGATAGCTTACTTCAAACAAAATGATCTTAACACATCTGTTTTACTTCTCTAGCTGTAGGCATTCCTATTGCTTACAACCAATGAACTCTGCCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160768845 166 - 185818997 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGATACAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCCAACATATCTCTTTTACTTCTCTAGCTGTAGGCAATCCTATTGCTTACAACCAATGAACTCTGCCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167409694 166 - 192294377 AGTTGTTCCTGTTGCCAAACATAATTATGAA-ATCCCAGATACAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACATATCTCTTTTACTTCTCTAGCTGTAGGCAATCCTATTGCTTACAACCAATGAACTCTGCCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5030396 166 -  30496662 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGATACAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACATATCTCTTTTACTTCTCTAGCTGTAGGCAATCCTATTGCTTACAACCAATGAACTCTGCCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13542430 164 +  21915920 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATCCCAGACACAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACATATCTCTTTTACTTCTCTAGCTGTAGGCAATCCTATTGCTTACAACCAATGAACTCTGCC--
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20043920 166 -  90373283 AGTTGTTCCTGTTGCCAATCATAATTATGAA-ATTCCAGATAGAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAGTCCTAACATATCTCATTTACTTCTCTAGCTGTAGGCAATCCTATTGCTTACAACCAATGAACTCTGCCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3563076 166 +   7543664 AGTTGTTCCTGTTGCCAGTCATAATTATGAA-ATCCCAGACACAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAGTCCTAACATATCTCTTTTACTTCTCTAGCTGTAGGCAATCTTATTGCTTACAACCAATGAACTCTGCCTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5320300 164 -  13750039 AGTTGTTCCTGTTGCCAATCGTAATTATGAA-ATTCCAGATACAAAGGCGAATACATTATA-TTTTTTGCTTTAGATAGTTTACTCCAAACAAAATAATCCTAACATATCTCTTTTATTTCTCTAGCTGTAGGCAATCCTATTGCTTACACCCAATGAACTCTGCC--
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23758421 168 +  47401472 AGTTGTGCCTGTTGCCAATCCTAATTGTAAACATTCCAAATACAAAAGCTAATAAATTAATATTTTTTGCTTTATTTAGTTTATTACAAATAAAATAATCCCAATATACTTGCTTTACTTTTCTAGTTTTAGGCATTCCTATTTTTTATAACCAACAAACTCTGCCTT
i micMur3.chr31             I 1047 I 68
s otoGar3.GL873528           24941202 167 -  38779656 AGTTGTGCCTGTTGCTAATTCTCATTGTGAACAGCACAAATACAAAAGCTAAGAAATTAAC-TTTTCGGCTCTCGCTCCTTTATTACAAAGGAAATCATCCCAATATCCCTGTTTTACTTCTCTAGTTTTAGGCATTCTTACAGTTTATAATCAATGAAGTCTTCCCT
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=175215.000000
s hg38.chr21_GL383579v2_alt    193743 28 +    201197 ATTGTCGAGATAATCACATTTTGCTGAA
s panTro5.chr21               8805918 27 +  33445071 -TTGTCGAGATAATCACATTTTGCTGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22345023 27 +  46275980 -TTGTCGAGATAATCACATTTTGCTGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328182 28 -  13858734 GTTGTCGAGATAATCACATTTTGCTGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9342602 28 +  32716333 GTTGTCAAAATAATCACATTTTGCTGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160769011 28 - 185818997 GTTGTCGAGATAATCACATTTTGCTGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167409860 28 - 192294377 GTTGTCGAGATAATCACATTTTGCTGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5030562 28 -  30496662 GTTGTCGAGATAATCACATTTTGCTGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13542594 27 +  21915920 -TTGTCGAGATAATCACATTTTGCTGAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20044086 28 -  90373283 GTTGTCGAGATAGTCACATTTTGCTGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3563242 28 +   7543664 GTTGTCGAGATAATCACATTTTGCTGAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5320464 27 -  13750039 -TTGTCGAGATAATCACATTTTGCTGAA
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24941369 28 -  38779656 TTCACATAGACAATTACATTTTGCTAAT
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23758589 68 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18081532 578 +  39895921 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=355538.000000
s hg38.chr21_GL383579v2_alt    193771 56 +    201197 TGCAAAATCTGTGATGTAATGATTT--TTTTTAAAAGCCTGCTTTAAAGTAGGAGATC
s panTro5.chr21               8805945 56 +  33445071 TGCAAAATCTGTGATGTAATGATTT--TTTTTAAAAGCCTGCTTTAAAGTAGGAGATC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22345050 56 +  46275980 TGCAAAATCTGTGATGTAATGATTT--TTTTTAAAAGCCTGCTTTAAAGTAGGAGATC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328210 56 -  13858734 TGCAAAATCTGTGATGTAATGATTT--TTTTTAAAAGCCTGCTTTAAAGTAGGAGATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9342630 56 +  32716333 TACAAAATCTGTGATGTAATGATTT--TTTTTAAAAGCCTGCTTTAAAGTAGGAGATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160769039 56 - 185818997 TGCAAAATATATGATGTAATGATTT--TATTTTAAAGCCTGCTTTAAAGTAGGAGATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167409888 56 - 192294377 TGCAAAATATGTGATGTAATGATTT--TATTTTAAAGCCTGCTTTAAAGTAGGAGATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5030590 56 -  30496662 TGCAAAATATATGATGTAATGATTT--TATTTTAAAGCCTGCTTTAAAGTAGGAGATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13542621 56 +  21915920 TGCAAAATATGTGATGTAATGATTT--TATTTTAAAGCCTGCTTTAAAGTAGGAGATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20044114 56 -  90373283 TGCAAAATCTGTGATGTAATGATTT--TATTTTAAAGCCTGCTTTAAAGTAGGAGATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3563270 56 +   7543664 TGCAAAATCTGTGATGTAATGATTT--TATTTTAAAGCCTGCTTTAAAGTAGGAGATC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5320491 56 -  13750039 TGCAAAATCTGTGATGTAATGATTT--TATTTTAAAGTCTGCTTTAAAGTAGGAGATC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24941397 58 -  38779656 TGTAAGATCTGTACTCTAATGATTCAACTTTCTGAAGCCTGTTCTAGAGTGAGGAGTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18082110 50 +  39895921 TATAAGATCTGCGATTTAATAGCCC--ACCTT----GTCT--TCTAGAGTAGGGTGTC
i canFam3.chr31             I 578 C 0
e micMur3.chr31              23758589 68 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=721412.000000
s hg38.chr21_GL383579v2_alt    193827 90 +    201197 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCGGGA
s panTro5.chr21               8806001 90 +  33445071 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCGGGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22345106 90 +  46275980 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCGGGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328266 89 -  13858734 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGAT-GAGTGCCGGGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9342686 90 +  32716333 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGCGTGCCAGGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160769095 90 - 185818997 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCAGGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167409944 90 - 192294377 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCAGGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5030646 90 -  30496662 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCAGGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13542677 90 +  21915920 TTATTAGTGGATGAGATCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCCA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCAGGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20044170 90 -  90373283 TTATTAGTGGATGAGACCTTGACCAATAAGCCTAGAATCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCAGGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3563326 90 +   7543664 TTATTAGTGGATGAGATCTTGACCAATAAGACTAGAATCCTTTGCTTTTTCAA-GGTTCTGTTAGATTTGAGAATGGATAGAGTGCCAGGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5320547 90 -  13750039 TTATTAGTGGATGAGACCTTGACCAATAAGACTAGAACCCTTTGCTTTTTCAA-GGTTCTATTAGATTTGAGAATGGATAGAGTGCCAGGA
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23758657 90 +  47401472 TTATTAATGCATGAGACCTTGACCAATGAGAGTAGGATCCATTGCTCCTTCAA-GGTTCTACTAAATTTGAGAATGGATAGAATGCCAGGA
i micMur3.chr31             I 68 I 979
s otoGar3.GL873528           24941455 91 -  38779656 TTATTAGTGAATAAGACCCTGATCAACAGTTCTAGAATCCATTGCTCAGTCAATGGATTTTAGAAATTTTAGAATGGCTAGAATGCCAGGA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18082160 88 +  39895921 TTAGTAGTTCATGAGAACTTT-TAAATAAAACTAGGATCCA-TGCTCCTTAAG-GTTCTTTTTAGCTTTGGGAATGGGTACAGTGCCAGGA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=82064.000000
s hg38.chr21_GL383579v2_alt    193917 17 +    201197 ACGTTGACTCTGT-ACCC
s panTro5.chr21               8806091 17 +  33445071 ACGTTGACTCTGT-ACCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22345196 17 +  46275980 ACGTTGACTCTGT-ACCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328355 17 -  13858734 ACGTTGACTCTCT-ACCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9342776 17 +  32716333 ACCTTGACTCTCT-ACCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160769185 17 - 185818997 TCTTTGACTTTCT-ACCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167410034 17 - 192294377 TCTTTGACTTTCT-ACCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5030736 17 -  30496662 TCTTTGACTTTCT-ACCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13542767 17 +  21915920 GCTTTGACTTTCT-ACCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20044260 17 -  90373283 TCTCTGACTTTCT-ACCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3563416 17 +   7543664 GCTTTGACTCTCT-ACCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5320637 17 -  13750039 GCTTTGACTCTCT-ACCC
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24941546 13 -  38779656 -----GCCTTCCTCACCC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18082248 17 +  39895921 GCTCCAAGTATCT-ACAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e dasNov3.JH578070            2499056 20739 +   3081153 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=2002873.000000
s hg38.chr21_GL383579v2_alt    193934 289 +    201197 CTTTGTCTCTACCTACAAACTCTCTTCTGAATTAGTCAAGGAAAGTTTGTTTCCTGTTGCCTAGTTCAGGGCTTCTCACGGTGCAATCCAAAGACCTCAGTCACCAAATAATCTGAGACAATGTATTAAGTAT-ATAGTCTTTCATGCCTTATCCTCAAACTATAGGATAAGATTCTTTGACAAAACTTACGGAATCCATTTA-TATAAAGTTGGTATCCACTGCAGCaactacatgcatgaaacatcatgagtgaattgcaatgcttt----atcctaagtggaagaagcccaa
s panTro5.chr21               8806108 289 +  33445071 CTTTGTCTCTACCTACAAACTCTCTTCTGAATTAGTCAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGGGCTTCTCACGGTGCAATCCAAAGACCTCAGTCACCAAATAATCTGAGACAATGTATTAAGTAT-ATAGTCTTTCATGCCTTATCCTCAAACTATAGGATAAGAATCTTTGACAAAACTTACGGAACCCATTTA-TATAAAGTTGGTATCCACTGCAGCAACTACACGcatgaaacatcgtgagtgaactgcaatgcttt----atcctaagtggacgaagcccaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22345213 289 +  46275980 CTTTGTCTCTACCTACAAACTCTCTTCTGAATTAGTCAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGGGCTTCTCACGGTGCAATCCAAAGACCTCAGTCACCAAATAATCTGAGACAATGTATTAAGTAT-ATAGTCTTTCATGCCTTATCCTCAAACTATAGGATAAGAATCTTTGACAAAACTTACGGAACCCATTTA-TATAAAGTTGGTATCCACTGCAGCAACTACACGcatgaaacatcgtgagtgaacagcaatgcttt----atcctaagtggacgaagcccaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328372 289 -  13858734 CTTTGTCTCTACCTACAAACTCTCTTCTGAATTAGTCAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGGGCTTCTCACAGTGCAATCCAAAGACCTCAGTCATCAAATAATCTGAGACAATGTATTAAGTAT-ATAGTCTTTCATGCCTTATCCTCAAAGTATAGGATAAGAATCTTTGACAAAACTTACGGAATCCATTTA-TATAAAGTTGGTATCCACTGCAGCAACTACACGcatgaaacatcatgagtgaattgcaatgcttt----atcctaagtggaagaagcccaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9342793 289 +  32716333 CTTTGTCTCTACCTACAAACACTCTCCTGAATTAGTTAAGGGAAGTTTGTTTCCTGTTGCCTAATTCATGGCTTCTCACAGTATATTCTGAAGACTTCAGTCATCAAATAATTTGAGACAATATATCAAGTAT-ATAGTCTTTCATGCCTTATCCACAACCTATAGGATAAGAATCTTTGAGAAAACTTACGGAATCCATTTA-TATAAAGTTGATATCCACTGCAGCAACTACACCcatgaaacatcatgagtgaattgcaatgcttt----atcctaagtggaagaagcccaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160769202 278 - 185818997 CTTTGTCTCTACCTACAAATACTCTTATGAATTAGTTAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGAGCTTCTCACAGTATATTCCAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ATAGTCTTTCATGCCTTATCCACAATCTATAGGATAAGAATCTTTGAGAAACCTTACGGAATCCATTTA------------TATCCACTGCAGCaactacatgcatgaaacaacatgagtgaatcgcaatgcttt----accctaagtggaagaagcccaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167410051 278 - 192294377 CTTTGTCTCTACCTACAAATACTCTTATGAATTAGTTAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGAGCTTCTCACAGTATATTCCAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ATAGTCTTTCATGCCTTATCCACAATCTATAGGATAAGAATCTTTGAGAAACCTTACGGAATCCATTTA------------TATCCACTGCAGCAACTACatgcatgaaacaacatgagtgaatcgcaatgcttt----accctaagtggaagaagcccaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5030753 278 -  30496662 CTTTGTCTCTACCTACAAATACTCTTATGAATTAGTTAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGAGCTTCTCACAGTATATTCCAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ATAGTCTTTCATGCCTTATCCACAATCTATAGGATACGAATCTTTGAGAAAACTTACGGAATCCATTTA------------TATCCACTGCAGCaactacatgcatgaaacaacatgagtgaatcgcaatgcttt----accctaagtggaagaagcccaa
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13542784 278 +  21915920 CTTTGTCTCTACCTACAAATACTCTTATGAATTAGTTAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGAGCTTCTCACAGTATATTCCAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ATAGTCCTTCATGCCTTATCCACAATCTATAGGATAAGAACCTTTGAGAAAACTTACGGAATCCATTTA------------TATCCACTGCAGCaactacatgcatgaaacaacatgagtgaatcgcaatgcttt----accctaagtggaagaagcccaa
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20044277 278 -  90373283 CTTTGTCTCTACCTACAAATACTCTCATGAATTAGTTAAGGGAAGTTTGTTTCCTGTTGCCTAGTTCAGAGCTTCTCACAGTATATTCAAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ATAGTCTTTCATGCCTTATCCACAATCTATAGGATAAGAATCTTTGAGAAAACTTATGGAATCCATTTA------------TATCCACTGCAGCAACTACatgcatgaaacaacatgagtgaatcgcaatgcttt----accctaagtggaagaagcccaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3563433 278 +   7543664 CTTTGTCTCTACCTATAAATACTCTTATGAATTAGTTAAGAGAAGTTTGTTTCCTGTTGTCTAGTTCAGAACTTCTCACAGTATATTCCAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ATAGTCCTTCATGCCTTATCCACAATCTATAGGATAAGAATCTTTGAGAAAACTTACGGAATCCATTTA------------TATCCACTGCAGCAACTACGtgcatgaaacaacatgagtgaatcgcaatgcttt----accctaagtggaagaagcccaa
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5320654 276 -  13750039 CTTTGTCTCTACCTACAAATACTC--ATGAATTAGTTAAGGGAAGTTTGTTACCTGTTGCCTAGTTCAGAGCTGCTCACAGTATATTCCAAAGACCTCAGTCATCAAATAATCTGAGACAATTTATTAAGTAT-ACATTATTTCATGCCTTATCCACAATCTATAGGATAAGAATCTTTGAGAAAACTTACGGAATCCATTTA------------TATCCACTGCAGCaactacatgcatgaaacaacctgagtgaatcacaatgcttt----accctaagtggaagaagcccaa
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24941559 286 -  38779656 CTTTGAGTCTGCCTCCAAACAGTCTTTTGGATCAGTTGAGGGAAATTTACC-----TTTACTAGGTCTGGgcttttcacagtatattccaaagacctcaagtgtcaaataatctgagacaatttattggaaataatagtgtcttatgccccacgctcaacctatagaataagaatctTTGATAAAACGTATGAAATCCATTTAATATGAGATTGGTGTCCACAGTAGCAACTACATGTCGGGAATACTGTGACTGAATCATTaggcatc----attctaattgaaaggagcctga
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18082265 289 +  39895921 ATTTAACTTTACCTGTAAGCAATGTTCTGAATTAGTTTTGGGGAATTAACCC----TTGCCTAGTTCAGGGCTTCTCAGAGTGTATTCCATAATCTTCTTTCATCAAATAATATAAGACCTTTTATTAAAAAT-ACAATCTCTTAAGCCCTATCTCCAACCTATAGAATACATATTTCTAAGAAAACATAAGGAATTCACTTA-TATGAAATCAGTGTCCCCAGTAGTaactacatataggcaacagcataggtaaatctcaaggcattatccatcctaagtgaaagaagcttaa
i canFam3.chr31             C 0 I 168
s dasNov3.JH578070            2519795 284 +   3081153 CTTTGACCTTGTCTACAATCAGGGTTCTGAATTAGGTAGAGAAATTTTACCT----TTACTGAGTTCATGGTTTCTCACAGTAGATTCCAAAGACTTCTTgcatcaaataacctgagacaatttgttaaaaat-acagacttttatgcccaattta-aatctacagtaccagaatctgtaAGCAAACTTACAGAAGCTATTCA-TATAAGGTTGCTGTCCACAGTGTCAAGTACatgcaggcaaggacatggatgcatctcgaggcata----atcttaagtgaaagaaggcaaa
i dasNov3.JH578070          I 20739 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=3809909.000000
s hg38.chr21_GL383579v2_alt    194223 574 +    201197  
s panTro5.chr21               8806397 574 +  33445071  
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22345502 574 +  46275980  
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8328661 572 -  13858734  
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9343082 572 +  32716333  
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160769480 570 - 185818997  
i rheMac8.chr3              C 0 I 71
s macFas5.chr3              167410329 570 - 192294377  
i macFas5.chr3              C 0 I 2
s macNem1.NW_012015021v1      5031031 570 -  30496662  
i macNem1.NW_012015021v1    C 0 I 2
s cerAty1.NW_012002954v1     13543062 570 +  21915920  
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20044555 565 -  90373283  
i chlSab2.chr2              C 0 I 2
s manLeu1.NW_012103476v1      3563711 570 +   7543664  
i manLeu1.NW_012103476v1    C 0 I 2
s colAng1.NW_012120598v1      5320930 566 -  13750039  
i colAng1.NW_012120598v1    C 0 C 0
s otoGar3.GL873528           24941845 588 -  38779656  
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18082722 647 +  39895921  
i canFam3.chr31             I 168 C 0
s dasNov3.JH578070            2520079 533 +   3081153  
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=56216.000000
s hg38.chr21_GL383579v2_alt    194797 21 +    201197 acacatatatgtgtgtgtgtg
s panTro5.chr21               8806971 19 +  33445071 --atatatatgtgtgtgtgta
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346076 21 +  46275980 atatatatgtgtgtgtgtgta
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329233 21 -  13858734 atatatatatgtgtgtgtgta
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9343654 21 +  32716333 GTATATATATATGTGTGTGCG
i nomLeu3.chr25             C 0 I 208
s macFas5.chr3              167410901 17 - 192294377 ----atgagtgtgtgtgtgtg
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      5031603 17 -  30496662 ----atgagtgtgtgtgtgtg
i macNem1.NW_012015021v1    I 2 C 0
s cerAty1.NW_012002954v1     13543632 19 +  21915920 --atatgagtgtgtgtgtgta
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045122 13 -  90373283 --------gtgtgtgtgtgtg
i chlSab2.chr2              I 2 C 0
s manLeu1.NW_012103476v1      3564283 15 +   7543664 ------gagtgtgtgtgtgtg
i manLeu1.NW_012103476v1    I 2 C 0
s colAng1.NW_012120598v1      5321496 19 -  13750039 --atatgtatgtgtgtgtgta
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e dasNov3.JH578070            2520612  0 +   3081153 C
e rheMac8.chr3              160770050 71 - 185818997 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18083369  0 +  39895921 C
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24942433  0 -  38779656 C

a score=52631.000000
s hg38.chr21_GL383579v2_alt    194818 20 +    201197 tatacacatatatatatata
s panTro5.chr21               8806990 20 +  33445071 tatacatatatatatataca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346097 20 +  46275980 tatacatatatatatataca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329254 17 -  13858734 tatatacatatatatat---
i gorGor5.CYUI01015003v1    C 0 C 0
s macFas5.chr3              167410918 20 - 192294377 tatacatatatgtgtgtgtg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5031620 20 -  30496662 tatacatatatgtgtgtgtg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13543651 20 +  21915920 tacatatatgtgtgtgtgtg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045135 20 -  90373283 tatacatatgtgtgtgtgtg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3564298 20 +   7543664 tatacatatatgtgtgtgtg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5321515 20 -  13750039 tacatatatatgtgtgtgtg
i colAng1.NW_012120598v1    C 0 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e dasNov3.JH578070            2520612  0 +   3081153 C
e rheMac8.chr3              160770050 71 - 185818997 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e canFam3.chr31              18083369  0 +  39895921 C
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24942433  0 -  38779656 C
e nomLeu3.chr25               9343675 208 +  32716333 I

a score=70627.000000
s hg38.chr21_GL383579v2_alt    194838 29 +    201197 cacacatatacacacatacatatTCCCCC
s panTro5.chr21               8807010 29 +  33445071 cacacatatacacacaaacatatTCCCCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346117 29 +  46275980 cacacatatacacacaaacatatTCCCCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329271 24 -  13858734 -----atatacacacatacatatTCCCCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9343883 29 +  32716333 CACACATATACACACATACATATTCCCCC
i nomLeu3.chr25             I 208 C 0
s macFas5.chr3              167410938 29 - 192294377 tgtatatatatatctatatatatTCCCCC
i macFas5.chr3              C 0 I 5
s macNem1.NW_012015021v1      5031640 29 -  30496662 tgtatatatatatctatatatatTCCCCC
i macNem1.NW_012015021v1    C 0 I 5
s cerAty1.NW_012002954v1     13543671 29 +  21915920 tatatatatatatctatatatatTCCCCC
i cerAty1.NW_012002954v1    C 0 I 5
s chlSab2.chr2               20045155 21 -  90373283 tatata--------tatatatatTCCCTC
i chlSab2.chr2              C 0 I 5
s manLeu1.NW_012103476v1      3564318 29 +   7543664 tgtatatatatatctatatatatTCCCCC
i manLeu1.NW_012103476v1    C 0 I 1681
s colAng1.NW_012120598v1      5321535 21 -  13750039 tgtata--------tatatatatTCCCCC
i colAng1.NW_012120598v1    C 0 I 5
s otoGar3.GL873528           24942433  4 -  38779656 -------------------------cctc
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18083369  3 +  39895921 --------------------------ctc
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e dasNov3.JH578070            2520612  0 +   3081153 C
e rheMac8.chr3              160770050 71 - 185818997 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=601503.000000
s hg38.chr21_GL383579v2_alt    194867 86 +    201197 TTGTATTCAGCATTGAATT--AGGACTATTTACATATCCAATATGCAATTCTGATTCTTTGCATAAGTAAGTTTAATATTTTTCCCAC
s panTro5.chr21               8807039 86 +  33445071 TTGTATTCAGCATTGAATT--AGGACTATTTACATATCCAATATGCAATTCTGATTCTTTGCATAAGTAAGTTTAATATTTTTCCCAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346146 86 +  46275980 TTGTATTCAGCATTGAATT--AGGACTATTTACATATCCAATATGCAATTCTGATTCTTTGCATAAGTAAGTTTAATATTTTTCCCAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329295 86 -  13858734 TTGTATTCAGCATTGAATT--AGGACTATTTACATATCCAATATGCAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9343912 86 +  32716333 TTGTATTCAGCATTGAATT--AGGACTATTTACATATCCATTATGTAATTCTGATTCCTTGCATAGGTAAGTTTAATATTTTTCCCAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770121 86 - 185818997 TTGTATTCAGCATTGAATT--AGGACTATTTACCTATCCAATATATAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i rheMac8.chr3              I 71 C 0
s macFas5.chr3              167410972 86 - 192294377 TTGTATTCAGCATTGAATT--AGGACTATTTACCTATCCAATATATAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i macFas5.chr3              I 5 C 0
s macNem1.NW_012015021v1      5031674 86 -  30496662 TTGTATTCAGCATTGAATT--AGGACTATTTACCTATCCAATATATAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i macNem1.NW_012015021v1    I 5 C 0
s cerAty1.NW_012002954v1     13543705 86 +  21915920 TTGTATTCAGCATTGAATT--AGGACTATTTACCTATCCAATATATAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i cerAty1.NW_012002954v1    I 5 C 0
s chlSab2.chr2               20045181 86 -  90373283 TTGTATTCAGCATTGAATT--AGGACTATTTACATGTCCAATATGTAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i chlSab2.chr2              I 5 C 0
s manLeu1.NW_012103476v1      3566028 86 +   7543664 TTGTATTCAGCATTGAATT--AGGACTATTTACCTATCCAATATATAATTCTGATTCTTTGCATAGGTAAGTTTAATATTTTTCCCAC
i manLeu1.NW_012103476v1    I 1681 C 0
s colAng1.NW_012120598v1      5321561 86 -  13750039 TTGTATTCAGCATTGAATT--AGAACTATTTACATATCCAATACGTAATTCTGATTCTTTGCATAGGTAAGTTCAATATTTTTCCCAC
i colAng1.NW_012120598v1    I 5 C 0
s otoGar3.GL873528           24942437 87 -  38779656 gtatatttagcattgagttgggggaatgtttacatatccaatatacaatttttcttcttttta-aggtaagttTACTATGTTTCCCAT
i otoGar3.GL873528          C 0 I 9
s canFam3.chr31              18083372 86 +  39895921 ttgtatttgtcattgagtt--gggaatagttacatacctaatatgtgattcttattcttttcatgggtaagcttaatatatttcccac
i canFam3.chr31             C 0 I 9
s dasNov3.JH578070            2520612 28 +   3081153 ----actttatatcaaatt--a------------------------------------------aaataattttaa------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23758747 979 +  47401472 I
e cebCap1.NW_016107322v1     13989273 71 -  14377064 I
e aotNan1.NW_018487195v1      9211684 57 -   9889416 I
e calJac3.chr21              26575019 32 +  50472720 I
e saiBol1.JH378168            8732566  0 +  13128814 C

a score=2681116.000000
s hg38.chr21_GL383579v2_alt    194953 318 +    201197 TACAAGAT-AAAGAATATGGAATTATATTTGTTCTTTGTGGCATATTTAA------------CCCAGGAAGGGGGG--AATAATGAATATATCACATGTGTAC---TT--TTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGCTACTACAATTGCCTATGCCCATTTGACTGC-TTTCCT-AAATGTGTTTGACAGTGTTGATAATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGACATTTCTGAAAATAATACCCTGGTACTTAGGAAAGGCTCATATTTAGTTACATAGTCC
s panTro5.chr21               8807125 318 +  33445071 TACAAGAT-AAAGAATATGGAATTATATTTGTTCTTTGTGGCATATTTAA------------CCCAGGAAGGGGGG--AATAATGAATATATCACATGTGTAC---TT--TTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGCTACTACAATTGCCTATGCCCATTTGACTGC-TTTCCT-AAATGTGTTTGACAGTGTTGATAATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGACATTTCTGAAAATAATACCCTGGTACTTAGGAAAGGCTCATATTTAGTTACATAGTCC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346232 317 +  46275980 TACAAGAT-AAAGAATATGGAATTATATTTGTTCTTTGTGGCATATTTAA------------CCCAGGAAGGGGGG--AATAATGAATATATCACATGTGTAC---TT--TTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGAC-GTTAAAAAATACAGACAAATCTCATTCTATGCTACTACAATTGCCTATGCCCATTTGACTGC-TTTCCT-AAATGTGTTTGACAGTGTTGATAATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGACATTTCTGAAAATAATACCCTGGTACTTAGGAAAGGCTCATATTTAGTTACATAGTCC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329381 318 -  13858734 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTTAA------------CCCAGGAAGGGGGC--AATAATGAATATATCACATGTGTAC---TT--TTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCAGACAGTTAAAAAATACAGACAAATCTCATTCTATGCTACTACAATTGCCTATGCCCATTTGACTGC-TTTCCT-AAATGTGTTTGACAGTGTTGATAATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGACATTTCTGAAAATAATACCCTGGTACTTAGGAAAGGCTCATATTTAGTTACATAGTCC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9343998 317 +  32716333 TACAAGAT-AAAGAATATGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGGAGGGGGG--AATAATGAATATATCACATGTGTAC----A--TTTTTACTGCTAAAATATGCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGCTATTACAATTGCCTATGCCCATTTGACTGC-TTTCCT-AAATGTGTTTGACAGTGTTGATAATCTGTAGGAGATGTTTCTGTAAATACAACCTCACAGAAATTTCTGAAAATAATACCCTGATACTAAGGAAAGGCTCATATTTAGTTACGTAGTCC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770207 317 - 185818997 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGAAAGGGGG--AATAATGAATATATCACCTGTGTAC----T--CTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTGCCTATGCCCATTTGCCTGT-TTTCCT-AAATCCATTTGACAGTGTTGATGATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAACGAAAGGCTCATATTTAGTTACGTAGTCC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411058 317 - 192294377 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGAAAGGGGG--AATAATGAATATATCACCTGTGTAC----T--CTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTGCCTATGCCCATTTGCCTGT-TTTCCT-AAATCCATTTGACAGTGTTGATGATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAATGAAAGGCTCATATTTAGTTACGTAGTCC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5031760 317 -  30496662 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGAAAGGGGG--AATAATGAATATATCACCTGTGTAC----T--CTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTGCCTATGCCCATTTGCCTGT-TTTCCT-AAATCCATTTGACAGTGTTGATGATCTGTAGGAGATGTTTCTGTAACTATAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAACGAAAGGCTCATATTTAGTTACGTAGTCC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13543791 317 +  21915920 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGAAAGGGGG--AATAATGAATATATCACCTGTGTAC----T--TTTTTGCTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTGCCTATGCCCATTTGCCTGT-TTACCT-AAATCCATTTGACAGTGTTGATGATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAACGAAAGGCTCATATTTAGTTACGTAGTCC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045267 318 -  90373283 TACAAGAT-AAAGAATGTGGAATTATATTTGATCTTTGTGGCATATTGAA------------CCCAGAAAGGGGGG--AATAATGAATATATCACATGTGTAC---TT--TTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTGCCTATGCCCATTTGCCTGT-TTTTCT-AAATCCATTTGACAGTGTTGATGATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAAGGAAAGGCTCATATTTAGTTACATAGTCC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566114 317 +   7543664 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGAAAGGGGG--AATAATGAATATATCACCTGTGTAC----T--TTTTTACTGCTAAAATATCCTGCAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTCCCTATGCCCATTTGCCTGT-TTTCCT-AAATCCATTTGACAGTGTTGATGATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAACGAAAGGCTCATATTTAGTTACGTAGTCC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5321647 318 -  13750039 TACAAGAT-AAAGAATGTGGAATTATATTTGTTCTTTGTGGCATATTGAA------------CCCAGGAAGGGGGG--AATAATGAATATATCACATGTGTGC---TT--TTTTTACTGCTAAAATATCCTGAAGTTTTCTTTTTCTGACAGTTAAAAAATACAGACAAATCTCATTCTATGTTACTACAATTGCCTGTGCCCATTTGCCTGT-TTTCCT-AAATCCATTTGACAGTGCTGATGATCTGTAGGAGATGTTTCTGTAACTACAACCTCACAGAGATTTCTGAAAATAATACCCTGGTACTAAGGAAAGGCTCATATTTAGTTACGTAGTCC
i colAng1.NW_012120598v1    C 0 C 0
s micMur3.chr31              23759726 316 +  47401472 TACAAGAT-GAAGAAAATAGAATTATATTCCTTCTTTGTGTCATGTTGAA------------CCCAGAGAGAAGGGAAAATGATGAATGTACCACTTGTGTAC---TT--TTTTCACTGCTAAACTATCTTGTGGTT----TTTTTAGGCAGTT-AAAAATACAGACACGACTTATTCTATGCCACTGCAATTGCCTATGCCCATTTGACTCT-TTTTTTAAAATGCACTTGACAGTGTTGATGATCTGTAAGAAATGTTGCTGTAGCTACAGCCTCACAGAGATTTCTGAAAATAATACTCAGATAGTAAGGAAAGGCCCATATTTAGTTATGTAGTCC
i micMur3.chr31             I 979 C 0
s otoGar3.GL873528           24942533 332 -  38779656 TATAAGAT-GAAGAAAGTAGAATTGTATTTCTTCCTTGTGTCATATCGAACATTTCCCCTTTCCCAGAGAAAGGGGAAAATCAGGAACATGCCACTTGTGTAC---TTTATTTTTACTGCTAAAATATCTTGTATTTTTC-TTTTCAGGAAGTT-AAAAATACAGACAGAACTTCTTCTATGCCACTACAATTGCCTACGCCCATTTGACTCT-TTTTCT-AAATACATTTGACAGTGTTGATGATCTGTAAGAGATGTTGCTGTAGCTACAGCCTCACAGAGACTTCTGAAAATAATACTTGGATAGTAAGGAAAAGCCCATATTTAGTTATGTAGTCC
i otoGar3.GL873528          I 9 C 0
s canFam3.chr31              18083467 306 +  39895921 tacaagataAAAAAATATGGAATCATATTTCTTCTTTGTAGCATATTGAT-------------------GTGGGAA--AATGATGAATATACCACTTTAGGGC---TT--TCTCCACTACTAAAATATCCCACAGTTT---TTTACTAGCAGTT-AAAAATACAGACAAAACTC--TTTATGCTGCAGAAATTGTCTGTGCCCATTTGACTGT-CTTCCT-AAATGCATTTGACAGTGTTGATGATCTGTGAAAGATGTGGCTGCAGCTGTAGCTTCACAGAGATTTCTGAAAATAATACCCTGATAGTAAGGAAAGGCCCACATTTAGTTATGTAGTCC
i canFam3.chr31             I 9 C 0
s dasNov3.JH578070            2520640 252 +   3081153 ------------------------------------------------------------------------------aatGATGAATATTCCATCTATTGGCCTTTT--TTTTCACTACTAAAATATCCAGTGGT-----TTTTCTGGGATTTAATAAAGGGAGACAAAATTCTTTCTATGCCATTGAAATTGCCTATGCTCATTTGACTCTCTTTCCT-AAATACATTTGACAGTGCTGATGATGTATGAGAGATGTTCCTGCAGCTGCATCCT--TGGAGATTTCTGAAAACAATGCCCTGATGGTAGGGAATGGCCCATATATTGCTACGTAGTCC
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13989273  71 -  14377064 I
e aotNan1.NW_018487195v1      9211684  57 -   9889416 I
e calJac3.chr21              26575019  32 +  50472720 I
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=1948461.000000
s hg38.chr21_GL383579v2_alt    195271 144 +    201197 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCATGGAAACAAGTACCAGTGAGGAGGTAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGTAAGGC
s panTro5.chr21               8807443 144 +  33445071 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCATGGAAACAAGTACCAGTGAGGAGGTAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGTAAGGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346549 144 +  46275980 CAAAACATGCATTTCATTTTGTGAATATAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCATGGAAACAAGTACCAGTGAGGAGGTAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGTAAGGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329699 144 -  13858734 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCATGGAAACAAGTACCACTGAGGAGGTAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGTAAGGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344315 144 +  32716333 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAACAGGAAGTTAATACAAATTAAAG-TGTAAGGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770524 144 - 185818997 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTACAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGGAAGGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411375 144 - 192294377 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTACAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGGAAGGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032077 144 -  30496662 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTACAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGGAAGGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544108 144 +  21915920 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTACAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGGAAGGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045585 144 -  90373283 CAAAACATGCATTTCATTCTGTGAATGTAGAAGGAACTATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGTAAGGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566431 144 +   7543664 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTACAAACCACCCATGGAAACAAGTACCAGTGAGGAGGCAAGAGAAAATGGGAAGTTAATACAAATTAAAG-TGGAAGGC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5321965 144 -  13750039 CAAAACATGCATTTCATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAACTTAATGATGAATTATAAACCACCCTTGGAAACAAGTACCAGTGAGGAGGCAAGAGAGAATGGGAAGTTAATACAAATTAAAG-TGTAAGGC
i colAng1.NW_012120598v1    C 0 M 2565
s calJac3.chr21              26575051 143 +  50472720 CAAAACGTACAGTTTATTTTGTGAATGTAGAAGGAACCATATGCTTTATTAAATTTAATGATGAATTATAAACCACCCATGAAAACAAGTACCAGTGAGGAGGAAAGAGAAACTGGGAAACTAATACAAATCAAAG-TG-AAGGC
i calJac3.chr21             I 32 C 0
s cebCap1.NW_016107322v1     13989344 144 -  14377064 CAAAACATGCAGTTCCTTTTGCGAATGTAGAAGGAAACATATGCTTTATTAAATTTAATGATGAATTACAAACCACCCAAGAAAACAAGTACCAGTGAGGAGGAAAGAGAAAATGGGAAGTTAATACATATCAAAGTTG-AAGTC
i cebCap1.NW_016107322v1    I 71 C 0
s aotNan1.NW_018487195v1      9211741 143 -   9889416 CAAAACATGCAGTTCATTTTGTGAATGTAGAAGGAAACATATGCTTTATCAAATTTAATGATGAATTACAAACCATCCAAGAAAATAAGTACCAGTGAGGAGGAAAGAGAAAATGGGAAGTTAATTCAAATCAAAA-TG-AAAGC
i aotNan1.NW_018487195v1    I 57 C 0
s micMur3.chr31              23760042 144 +  47401472 CAAAACATGCATTTCATTTTGTGCATGTGAAAGAAGCCATATGCTTCACTGAATGTAATGATGAATTATAAACCACCCATGAAAACAAGTACCAGTGAGGAGGCAGGAGGAAATGGGAAGTTAATACAAATCAAAA-TGCAAGGC
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24942865 144 -  38779656 CCAAACATGCATTTCATTTCATGCATACAGAAGGAGCCATATGCTTCACTGAATGTAATGATGAATTATAAGCCACCCATGAAAACAAGTACCAGTGGGAAGGCAGGAGAAAACAGGAGGTTAATACAAATCAAAG-TGCAAGGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18083773 144 +  39895921 CCAAACATGCATTTCATTTTGTACATGTGGAAGGAGCCATATGCTTCACTGAATGTAATGATGAATTATAAACCACCCATGAAAACAAGCACCAGTGAGGAGGCAAGAGGAACAGGGAAGTTAATACAAATCAAAG-TGCAAGGC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2520892 143 +   3081153 CCAAACATGCATTTCATT-TGTGCAGGTAGAAGGATCCATATGCTTCACTGAATGTAATGATGAATTATAAACCACCCATGAAAACAAGCGCTGGGGAGGAGGCAGCAGGAAACAGAAAGTTAATATGAGCTAGAG-TGCAAAGC
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566   0 +  13128814 C

a score=956233.000000
s hg38.chr21_GL383579v2_alt    195415 127 +    201197 CATACATACATAGAACCAGCTGAGCCTTTGTTTTCC-ATAAAGTTTATATTTAATTTTTTATGGTAGTCTATATTTAAGAAATTCAT---------------TTTTTGTGTGTGTTCTA-TTTTGACTTGGTTTCAAGAAGAGC
s panTro5.chr21               8807587 127 +  33445071 CATACATACATAGAACCAGCTGAGCCTTTGTTTTCC-ATAAAGTTTATATTTAATTTTTTATGGTAGTCTATATTTAAGAAATTCAT---------------TTTTTGTGTGTGTTCTA-TTTTGACTTGGTTTCAAGAAGAGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346693 126 +  46275980 CATACATACATAGAACCAGCTGAGCCTTTGTTTTCC-ATAAAGTTTATATTTAA-TTTTTATGGTAGTCTATATTTAAGAAATTCAT---------------TTTTTGTGTGTGTTCTA-TTTTGACTTGGTTTCAAGAAGAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329843 127 -  13858734 CATACATACATAGAACCAGCTGAGCCTTTGTTTTCC-ATAAAGTTTATATTTAATTTTTTATGGTAGTCTATATTTAAGAAATTCAT---------------TTTTTGTGTGTGTTCTA-TTTTGACTTGGTTTCAAGAAGAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344459 126 +  32716333 CATACATACAAAGAACCAACTGAGGCTTTGTTTTCC-ATAAAGTTTATATTTAATTTTTTATGGTAGTCTATATTTAAGAAATTCAT---------------TTTTTGTGTGTTCTAT--TTTTGACTTGGTTTCAAGAAGAGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770668 115 - 185818997 -TGAAATACATAGAACCAACTGAG--------------TAAAGTTTACATTTAATTTTTTATGGTAGTCTACCTTTAAGAAGCTCAT--------------GTTTGTGTGTGTGTTCTATTTTTGACTTGGTTTCAAGAAGAGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411519 115 - 192294377 -TGAAATACATAGAACCAACTGAG--------------TAAAGTTTACATTTAATTTTTTATGGTAGTCTACCTTTAAGAAGCTCAT--------------GTTTGTGTGTGTGTTCTATTTTTGACTTGGTTTCAAGAAGAGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032221 115 -  30496662 -TGAAATACATAGAACCAACTGAG--------------TAAAGTTTACATTTAATTTTTTATGGTAGTCTACCTTTAAGAAGCTCAT--------------GTTTGTGTGTGTGTTCTATTTTTGACTTGGTTTCAAGAAGAGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544252 115 +  21915920 -TGAAATACATAGAACAAACTGAG--------------TAAAGTTTACATTTAATTTTTTATGGTAGTCTACCTTTAAGAAACTCAT--------------GTGTGTGTGTGTGTTCTATTTTTGACTTGGTTTCAAGAAGAGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045729 114 -  90373283 -TGAAATACACAGAACCAACTGAG--------------TAAAGTTTACATTTAATTTTTTATGGTAGTCTACATTTAAGAAGCTCAT---------------TTTTTGTGTGTGTTCCATTTTTGACTCGGTTTCAAGAAGAGC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566575 115 +   7543664 -TGAAATACATAGAACCAACTGAG--------------TAAAGTTTACATTTAATTTTTTATGGTAGTCTACCTTTAAGAAGCTCAT--------------GTTTGTGTGTGTGTTCTATTTTTGACTTGGTTTCAAGAAGAGT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575194  88 +  50472720 -TAAAATACACCGAACCAGCTGAGTCTTTGCTGTCC-ATAAAGTTTATATTTAATTTTTTATGGTAGTCTATATTTAAGAAG-----------------------TTCATTGT-------------------------------
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989488 126 -  14377064 -TAAAATACATTGAACCAGCTGAGTCTTTGCTGTCC-ATAAAGTTTACATTTAATTTTTTATGGTAGTCTATATTTAAGAAGTTCA----------------TTATTTTTTGTACTCTATTTTTGACTTAGTTTCAAGAAGAGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9211884 126 -   9889416 -TAAAATACATTGAACCAGCTGAGTCTTTGCTGTCC-ATAAAGTTTATATTTAATTTTTTATGGTAGCCTATATTTAAGAAGTTCA----------------TTGTTTTCTGTATTCTATTTTTGACTTAGTTTCAAGAAGAGC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760186 125 +  47401472 -TGAAATAAATTGAACCAACTGTGCC-TTGTTTTCT-ATAAAGTTTATATTTAATTTTTAAAAGAAGTCTATATTTAAGGAGTTCA----------------CTGTTTTTTGTGCTCTATTTTTGACTTATTTTCAAGAAGAGC
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943009 123 -  38779656 -TGAGATAAAGTGAACCAACTGTGCCTTTGTGCTCT-ATAACGtttatatttaatttttaatagaaatatatattta---aGTTCA----------------CTCTTTATCACGCTCTAGTTTTGACATGTTTTTAAGAAGAGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18083917 142 +  39895921 -TCAAATAAATTGAACCAACTGTGCTTTTGCTTTCT-ATACTGTTTATATTTAATTTTTCATGGGAGTCTATATTTAAGGAGCTCATTGCTCTCTGTGTGTGTGTGTGTGTGTATTCTATTTTTGTCTTGGTTTTTAGAACAGC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521035 127 +   3081153 -TAAAGTAAATTAAATCAACTATGCTTTTGCTATCCTACATAGTTTATATTTAATTTTTTATGGAAGTGTATATTTAAGGAGACCA----------------TTTATTTTCATGTTCTATTTTTTCCTTGTTTTTTAGATGAGC
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=14655.000000
s hg38.chr21_GL383579v2_alt    195542 2 +    201197 AT
s panTro5.chr21               8807714 2 +  33445071 AT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346819 2 +  46275980 AT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329970 2 -  13858734 AT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344585 2 +  32716333 AT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770783 2 - 185818997 GT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411634 2 - 192294377 GT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032336 2 -  30496662 GT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544367 2 +  21915920 GT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045843 2 -  90373283 GT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566690 2 +   7543664 GT
i manLeu1.NW_012103476v1    C 0 C 0
s cebCap1.NW_016107322v1     13989614 2 -  14377064 AT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212010 2 -   9889416 AT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760311 2 +  47401472 AT
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943132 2 -  38779656 AT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084059 2 +  39895921 AT
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2521162 0 +   3081153 C
e calJac3.chr21              26575282 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=9555.000000
s hg38.chr21_GL383579v2_alt    195544 1 +    201197 T
s panTro5.chr21               8807716 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346821 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329972 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344587 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770785 1 - 185818997 T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411636 1 - 192294377 T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032338 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544369 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045845 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566692 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s cebCap1.NW_016107322v1     13989616 1 -  14377064 T
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212012 1 -   9889416 T
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760313 1 +  47401472 T
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943134 1 -  38779656 T
i otoGar3.GL873528          C 0 C 0
e dasNov3.JH578070            2521162 0 +   3081153 C
e canFam3.chr31              18084061 0 +  39895921 C
e calJac3.chr21              26575282 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=3276.000000
s hg38.chr21_GL383579v2_alt    195545 1 +    201197 A
s panTro5.chr21               8807717 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346822 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329973 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344588 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s cebCap1.NW_016107322v1     13989617 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212013 1 -   9889416 A
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760314 1 +  47401472 A
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943135 1 -  38779656 A
i otoGar3.GL873528          C 0 I 1
e dasNov3.JH578070            2521162 0 +   3081153 C
e cerAty1.NW_012002954v1     13544370 0 +  21915920 C
e macNem1.NW_012015021v1      5032339 0 -  30496662 C
e macFas5.chr3              167411637 0 - 192294377 C
e rheMac8.chr3              160770786 0 - 185818997 C
e canFam3.chr31              18084061 0 +  39895921 C
e calJac3.chr21              26575282 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3566693 0 +   7543664 C
e chlSab2.chr2               20045846 0 -  90373283 C

a score=2548.000000
s hg38.chr21_GL383579v2_alt    195546 1 +    201197 A
s panTro5.chr21               8807718 1 +  33445071 A
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346823 1 +  46275980 A
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329974 1 -  13858734 A
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344589 1 +  32716333 A
i nomLeu3.chr25             C 0 C 0
s cebCap1.NW_016107322v1     13989618 1 -  14377064 A
i cebCap1.NW_016107322v1    C 0 I 6
s aotNan1.NW_018487195v1      9212014 1 -   9889416 A
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760315 1 +  47401472 A
i micMur3.chr31             C 0 C 0
e dasNov3.JH578070            2521162 0 +   3081153 C
e cerAty1.NW_012002954v1     13544370 0 +  21915920 C
e macNem1.NW_012015021v1      5032339 0 -  30496662 C
e macFas5.chr3              167411637 0 - 192294377 C
e rheMac8.chr3              160770786 0 - 185818997 C
e canFam3.chr31              18084061 0 +  39895921 C
e calJac3.chr21              26575282 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3566693 0 +   7543664 C
e chlSab2.chr2               20045846 0 -  90373283 C

a score=9996.000000
s hg38.chr21_GL383579v2_alt    195547 5 +    201197 TAGTT
s panTro5.chr21               8807719 5 +  33445071 TAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346824 5 +  46275980 TAGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329975 5 -  13858734 TAGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344590 5 +  32716333 TAGTT
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26575282 5 +  50472720 TTTTT
i calJac3.chr21             C 0 C 0
s aotNan1.NW_018487195v1      9212015 5 -   9889416 TAGTT
i aotNan1.NW_018487195v1    C 0 I 323
s micMur3.chr31              23760316 5 +  47401472 TAGTT
i micMur3.chr31             C 0 I 8
e dasNov3.JH578070            2521162 0 +   3081153 C
e cerAty1.NW_012002954v1     13544370 0 +  21915920 C
e macNem1.NW_012015021v1      5032339 0 -  30496662 C
e macFas5.chr3              167411637 0 - 192294377 C
e rheMac8.chr3              160770786 0 - 185818997 C
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e canFam3.chr31              18084061 0 +  39895921 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3566693 0 +   7543664 C
e chlSab2.chr2               20045846 0 -  90373283 C

a score=79943.000000
s hg38.chr21_GL383579v2_alt    195552 98 +    201197 GATGTgcgtgaacccgggaggcggagcttgcagtgagccgagattgcaccactgcactccagcctgggcgacagagtgagactccgtct-caaaaaaaa
s panTro5.chr21               8807724 98 +  33445071 GATGTgcgtgaacccgggaggcggagcttgcagtgagccgagattgcaccactgcactccagcctgggcgacagagcgagactccgtct-caaaaaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346829 99 +  46275980 GATGTgcgtgaacccgggaggcagagcttgcagtgagccgagattgcaccactgcactccagcctgggcgacagagcgagactccgtctacaaaaaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8329980 98 -  13858734 GATGTgcgtgaacccgggaggcggagcttgcagtgagccgagattgcaccactgcactccagcctgggtgacagagtgagactccgtct-caaaaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344595 98 +  32716333 GATGTgcgtgaacccgggaggcggagcttgcagtgagctgagatcgcgccactgcactccagcctgggtgacagagtgagactccatct-caaaaaaga
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26575287 32 +  50472720 -----------------------------------------------------GTGCTCTATTTT---TGACATAG----------TTT-CAAGAGGAG
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23760321  8 +  47401472 I
e dasNov3.JH578070            2521162  0 +   3081153 C
e cerAty1.NW_012002954v1     13544370  0 +  21915920 C
e macNem1.NW_012015021v1      5032339  0 -  30496662 C
e macFas5.chr3              167411637  0 - 192294377 C
e rheMac8.chr3              160770786  0 - 185818997 C
e cebCap1.NW_016107322v1     13989619  6 -  14377064 I
e canFam3.chr31              18084061  0 +  39895921 C
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24943136  1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3566693  0 +   7543664 C
e chlSab2.chr2               20045846  0 -  90373283 C

a score=2592.000000
s hg38.chr21_GL383579v2_alt    195650 2 +    201197 aa
s panTro5.chr21               8807822 2 +  33445071 aa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346928 2 +  46275980 aa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330078 2 -  13858734 aa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344693 2 +  32716333 aa
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26575319 2 +  50472720 CA
i calJac3.chr21             C 0 C 0
s dasNov3.JH578070            2521162 2 +   3081153 AA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e cerAty1.NW_012002954v1     13544370 0 +  21915920 C
e macNem1.NW_012015021v1      5032339 0 -  30496662 C
e macFas5.chr3              167411637 0 - 192294377 C
e rheMac8.chr3              160770786 0 - 185818997 C
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e canFam3.chr31              18084061 0 +  39895921 C
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3566693 0 +   7543664 C
e chlSab2.chr2               20045846 0 -  90373283 C

a score=327.000000
s hg38.chr21_GL383579v2_alt    195652 1 +    201197 a
s panTro5.chr21               8807824 1 +  33445071 a
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346930 1 +  46275980 a
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330080 1 -  13858734 a
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344695 1 +  32716333 a
i nomLeu3.chr25             C 0 C 0
s calJac3.chr21              26575321 1 +  50472720 T
i calJac3.chr21             C 0 I 1
s canFam3.chr31              18084061 1 +  39895921 A
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521164 1 +   3081153 G
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e cerAty1.NW_012002954v1     13544370 0 +  21915920 C
e macNem1.NW_012015021v1      5032339 0 -  30496662 C
e macFas5.chr3              167411637 0 - 192294377 C
e rheMac8.chr3              160770786 0 - 185818997 C
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3566693 0 +   7543664 C
e chlSab2.chr2               20045846 0 -  90373283 C

a score=-346.000000
s hg38.chr21_GL383579v2_alt    195653 1 +    201197 -a
s panTro5.chr21               8807825 1 +  33445071 -a
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346931 1 +  46275980 -a
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330081 1 -  13858734 -a
i gorGor5.CYUI01015003v1    C 0 I 7
s nomLeu3.chr25               9344696 1 +  32716333 -a
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770786 1 - 185818997 -A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411637 1 - 192294377 -A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032339 1 -  30496662 -A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544370 1 +  21915920 -A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045846 1 -  90373283 -A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566693 1 +   7543664 -A
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575323 1 +  50472720 -A
i calJac3.chr21             I 1 C 0
s canFam3.chr31              18084062 1 +  39895921 -G
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521165 1 +   3081153 T-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=7098.000000
s hg38.chr21_GL383579v2_alt    195654 1 +    201197 a
s panPan2.chr21              22346932 1 +  46275980 a
i panPan2.chr21             C 0 I 33
s gorGor5.CYUI01015003v1      8330089 1 -  13858734 a
i gorGor5.CYUI01015003v1    I 7 C 0
s nomLeu3.chr25               9344697 1 +  32716333 a
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770787 1 - 185818997 A
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411638 1 - 192294377 A
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032340 1 -  30496662 A
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544371 1 +  21915920 A
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045847 1 -  90373283 A
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566694 1 +   7543664 A
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575324 1 +  50472720 A
i calJac3.chr21             C 0 C 0
s canFam3.chr31              18084063 1 +  39895921 A
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521166 1 +   3081153 A
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panTro5.chr21               8807826 0 +  33445071 C

a score=13384.000000
s hg38.chr21_GL383579v2_alt    195655 3 +    201197 TAG
s gorGor5.CYUI01015003v1      8330090 3 -  13858734 TAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344698 3 +  32716333 TAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770788 3 - 185818997 TAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411639 3 - 192294377 TAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032341 3 -  30496662 TAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544372 3 +  21915920 TAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045848 3 -  90373283 TGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566695 3 +   7543664 TAG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575325 3 +  50472720 TTG
i calJac3.chr21             C 0 C 0
s canFam3.chr31              18084064 3 +  39895921 TGG
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2521167 3 +   3081153 TGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24943136 1 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826 0 +  33445071 C

a score=-566.000000
s hg38.chr21_GL383579v2_alt    195658 3 +    201197 --TTG
s gorGor5.CYUI01015003v1      8330093 3 -  13858734 --TTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344701 3 +  32716333 --TTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770791 3 - 185818997 --TTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411642 3 - 192294377 --TTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032344 3 -  30496662 --TTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544375 3 +  21915920 --CTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045851 3 -  90373283 --TTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566698 3 +   7543664 --TTG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575328 3 +  50472720 --TTT
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24943137 2 -  38779656 --TT-
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18084068 2 +  39895921 --TT-
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2521170 3 +   3081153 TAT--
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e cebCap1.NW_016107322v1     13989619 6 -  14377064 I
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826 0 +  33445071 C

a score=44252.000000
s hg38.chr21_GL383579v2_alt    195661 7 +    201197 ATGTGAT
s gorGor5.CYUI01015003v1      8330096 7 -  13858734 ATGTGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344704 7 +  32716333 ATGTGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770794 7 - 185818997 ATGTGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411645 7 - 192294377 ATGTGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032347 7 -  30496662 ATGTGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544378 7 +  21915920 ATGTGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045854 7 -  90373283 ATGTGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566701 7 +   7543664 ATGTGAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575331 7 +  50472720 ATATGAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989625 7 -  14377064 ATGTGAT
i cebCap1.NW_016107322v1    I 6 C 0
s otoGar3.GL873528           24943139 7 -  38779656 GGGTCAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084070 7 +  39895921 GTGCCAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521173 7 +   3081153 GTGTGAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760321 8 +  47401472 I
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826 0 +  33445071 C

a score=64711.000000
s hg38.chr21_GL383579v2_alt    195668 12 +    201197 TATTCT-AAATAT
s gorGor5.CYUI01015003v1      8330103 12 -  13858734 TATTCT-AAATAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344711 12 +  32716333 TATTCT-AAGTTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770801 12 - 185818997 TATTCT-AACTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411652 12 - 192294377 TATTCT-AACTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032354 12 -  30496662 TATTCT-AACTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544385 12 +  21915920 TATTCT-AACTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045861 12 -  90373283 TATTCT-AACTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566708 12 +   7543664 TATTCT-AACTAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575338 12 +  50472720 TAGTCT-GAGTAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989632 12 -  14377064 TAGTCT-GAGTAT
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23760329 12 +  47401472 TATTCT-AAGTAT
i micMur3.chr31             I 8 C 0
s otoGar3.GL873528           24943146 12 -  38779656 TATTCC-AAGTTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084077 13 +  39895921 TATTCTAAAGTAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521180  6 +   3081153 TATTAT-------
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9212020 323 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=399850.000000
s hg38.chr21_GL383579v2_alt    195680 48 +    201197 TCTAATTATTCTTATATCATATTTTTCCTGAATTTGTATTACATATTT
s gorGor5.CYUI01015003v1      8330115 48 -  13858734 TCTAATTATTCTTATATCATATTTTTCCTGAATTTGTATTACATATTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344723 48 +  32716333 TCTAATTAttcttatatcatatttttcctgaatttgtattacatattt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770813 48 - 185818997 TCTAATTAttcttatatcatatttttccagaatttatattacatattt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411664 48 - 192294377 TCTAATTATTCTTATATCATATTTTTCCAGAATTTACATTACATATTT
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      5032366 48 -  30496662 TCTAATTAttcttatatcatatttttccagaatttatattacatattt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544397 48 +  21915920 TCTAATTAttcttatatcatatttttccagaatttatattacatattt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045873 48 -  90373283 TCTAATTATTCTTATACCATATTTTTCCAGCATTTATATTACATATTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566720 48 +   7543664 TCTAATTAttcttatatcatatttttccagaatttatattacatattt
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575350 47 +  50472720 TCTAATCATTCTCATATTACA-TTTTCTAGAATTTATATTACATATTT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989644 48 -  14377064 TCTAATCATTCTTATATTGTATTTTTCCAGAATTTATATTACATATTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212343 48 -   9889416 TCTAATCATTCTTATATTACATTTTTCCAGAATTTATATTATATATTT
i aotNan1.NW_018487195v1    I 323 C 0
s micMur3.chr31              23760341 48 +  47401472 TCTAATTATTATTATATTGTATTTGTCTAGAATTTATGTTGCATATTT
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943158 48 -  38779656 CCTAATTATTCTCATATTGTATTTTTCTAGAATTTTTGTTGTATATTT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084090 44 +  39895921 TCTAATTAATCCTATATTGTGTTTTTTCTGGAAT----TTATATACTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521186 47 +   3081153 TATGATTACT-TCATATTGTGTTTTTCTAGAATTTATGTTACATATTT
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=8666.000000
s hg38.chr21_GL383579v2_alt    195728 1 +    201197 C
s gorGor5.CYUI01015003v1      8330163 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344771 1 +  32716333 c
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770861 1 - 185818997 c
i rheMac8.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032414 1 -  30496662 c
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544445 1 +  21915920 c
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045921 1 -  90373283 C
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566768 1 +   7543664 c
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575397 1 +  50472720 C
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989692 1 -  14377064 C
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212391 1 -   9889416 C
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760389 1 +  47401472 C
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943206 1 -  38779656 C
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084134 1 +  39895921 C
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521233 1 +   3081153 T
i dasNov3.JH578070          C 0 C 0
e macFas5.chr3              167411712 1 - 192294377 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826 0 +  33445071 C

a score=121161.000000
s hg38.chr21_GL383579v2_alt    195729 17 +    201197 ATACTA------GGTAAAAGCTA
s gorGor5.CYUI01015003v1      8330164 17 -  13858734 ATACTA------GGTAAAAGCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344772 17 +  32716333 atattA------GGTAAAAGCTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770862 17 - 185818997 ataCAA------GGTAAAAGCTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411713 17 - 192294377 ATACGA------GGTAAAAGCTA
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      5032415 17 -  30496662 ataCGA------GGTAAAAGCTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544446 17 +  21915920 ataCTA------GGTAAAAGCTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045922 17 -  90373283 ATACTA------GGTAAAAGCTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566769 17 +   7543664 ataCTA------GGTAAAAGCTA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575398 17 +  50472720 ATACTA------GGTAAAAACTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989693 17 -  14377064 ATACTA------GGTAAAAACTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212392 17 -   9889416 ATACTA------GGTAAAAACTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760390 16 +  47401472 AT-------AATGGTAAAAGCTA
i micMur3.chr31             C 0 I 145
s otoGar3.GL873528           24943207 23 -  38779656 ACACTAAAGAATAGTAAAAAATA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084135 17 +  39895921 ATACTA------CCCAAAAGCTA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521234 17 +   3081153 ATACTA------ACTGAAAAGTA
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=779364.000000
s hg38.chr21_GL383579v2_alt    195746 137 +    201197 CT--CTTTTTTTAATGAATAATAAATA--TTTTTAGTATATTGTGGGATTTTTTTCTCTGATGTAAGATTACT--GGGAAATTAAGACTTGAAAGATGACC-ACTCTTTTTGACTGTTAAAAGGAAATAGCTAACT-TTGTTCTA
s gorGor5.CYUI01015003v1      8330181 136 -  13858734 CT--CGTTTTTTAATGAATAATAAATA---TTTTAGTACATTGTGGGATTTTTTTCTCTGATGTAAGATTACT--GGGAAATTAAGACTTGAAAGATGACC-ACTCTTTGAGACTGTTAAAAGGAAATAGCTAACT-TTGTTCTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344789 135 +  32716333 CT--CGTTTTTTAATGAATAATAAATA--TTTTTAGTATATTGTGGGA--TTTTTCTCCGATGTACGATTACT--GGGAAATTAAGACTTGAAAGATGACC-ACTCTTTGAGACTGTTAAAAGGAAATAGCTAACT-TTGTTCTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160770879 135 - 185818997 CT--TGTTTTTTAACGAATAACAAATA--TTTTTAATATATTGTGGGA--TTTTTCTGTGATGTAAGATTACT--AGGAAATTAAGACTTGGAAGATGACC-ACTCTTTGAGACTGTTAAAATGAAATAGCTAACT-TTATTCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411730 135 - 192294377 CT--TGTTTTTTAACGAATAACAAATA--TTTTTAATATATTGTGGGA--TTTTTCTGTGATGTAAGATTACT--AGGAAATTAAGACTTGGAAGATGACC-ACTCTTTGAGACTGTTAAAATGAAATAGCTAACT-TTATTCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032432 135 -  30496662 CT--TGTTTTTTAACGAATAACAAATA--TTTTTAATATATTGTGGGA--TTTTTCTGTGATGTAAGATTACT--AGGAAATTAAGACTTGGAAGATGACC-ACTCTTTGAGACTGTTAAAATGAAATAGCTAACT-TTATTCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544463 135 +  21915920 CT--TGTTTTTTAACGAATAATAAATA--TTTTTAATATATTGTGGGA--TTTTTCTGTGATGTAAGATTACT--AGGAAATTAAGACTTGGAAGATGACC-ACTCTTTGAGACTGTTAAAATGAAATAGCTAACT-TTATTCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20045939 113 -  90373283 CT--TGTTTTTTAATGAATAATAAATA--TTTTTAATATATTGTGGGA------------------------T--AGGAAATTAAGACTTGGAAGATGACC-ACTCTTTGAGACTGTTAAAATGAAATAGCTAACT-TTATCCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566786 135 +   7543664 CT--TGTTTTTTAACGAATAATAAATA--TTTTTAATATATTGTGGGA--TTTTTCTGTGATGTAAGATTACT--AGGAAATTAAGACTTGGAAGATGACC-ACTCTTTGAGACTGTTAAAATGGAATAGCTAACT-TTATTCTG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575415 132 +  50472720 C----TTTTTTTAATGAATAGTAAATA--TTTTCAGCATATTGTGGGA--TTTTTCTCTGATGTAAGGTTACT--AGGAAATTAACA-TTGAACGATGATC-TCTCATATAGACTATTAAAATGAAATAGCTAACT-TTGTTCTC
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989710 133 -  14377064 CT---TTTTTTTAATGAATAGTAAATA---TTTCAGTATATTGTGGGA--TTTTTCTCTGATGTCAGATTAGT--AGGAAATTAACAGTTGAAAGATGATC-ACTCTTATAGACTATTAAAATGAAATAGCTAACT-TTGTTCTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212409 133 -   9889416 C----TTTTTTTAATGAATAGTAAATA--TTTTCAGTATATTGTGGGA--TTTTTCTCTAATGTCAGATTACT--AGGAAATTAACAGTTGAAAGATAATC-ACTGTTATAGACTGTTAAAATGAAATAGCTAACT-TTGTTCTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943230 119 -  38779656 ----TGGTTTTTAATATAAGATAAATA--TTTTCATCACATTGTGGTA--TTTTTCTCTGATGTCAGGTTACT--AGGAAACTAAGATTTGTAAGATAAT------------ACTGT---AATGAAATAGCCAACA-TTGTTTTC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084152 133 +  39895921 CTGATGTTGAGTTGTGATAAATAATTA--TTTTCATTGCATTGTGGGA--TTTTTCTTTGATGTGATGTTACTAAAAAAAAATAAGACTTGACTGA-------CTTTTTGAGACTGCTATAATGAATTAGCTAATA-TTGTTCTC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521251 137 +   3081153 ---CTGATTTTAAATATGGAATAAATACTTTTTCATTATATTGTAATA---TTTTCCCTTTTATCAGGTTACC--AGAAAATTGAGACTTGATAAAGCATCTTTTTTTTGAGAAAGTCATAATGAAGTAGCTAAATATTATTCAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760406 145 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933  33 +  46275980 I
e panTro5.chr21               8807826   0 +  33445071 C

a score=128729.000000
s hg38.chr21_GL383579v2_alt    195883 23 +    201197 TTATAGCTATGATT---------------------------ATGATATAG
s gorGor5.CYUI01015003v1      8330317 23 -  13858734 TTATAGCTATGATT---------------------------ATGATATAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344924 23 +  32716333 TTATAGCTATGATT---------------------------ATGATATGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771014 23 - 185818997 TTATAGCTGTGGTG---------------------------ATGATATAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411865 23 - 192294377 TTATAGCTGTGGTG---------------------------ATGATATAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032567 23 -  30496662 TTATAGCTGTGGTG---------------------------ATGATATAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544598 23 +  21915920 TTATAGCTGTGGTG---------------------------ATGATATAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046052 23 -  90373283 TTATAGCTATGGTG---------------------------ATGACATAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566921 23 +   7543664 TTATAGCTGTGGTG---------------------------ATGATATAG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575547 23 +  50472720 TTATAGCAATAGTT---------------------------AGGACACAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989843 23 -  14377064 TTATAGCAATAGTT---------------------------AGGATACAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212542 23 -   9889416 TTATAGCAATAGTT---------------------------AGGATACAA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760551 23 +  47401472 TTATAGCTAGAGTT---------------------------ATGATACAG
i micMur3.chr31             I 145 C 0
s otoGar3.GL873528           24943349 23 -  38779656 CTACAGCTAGGATT---------------------------ATGTTATAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084285 21 +  39895921 TTGAAGCTTTGGTT---------------------------ATGAT--TA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521388 50 +   3081153 TTCTTGCTACCTTTACAGTAGATAGATAGATTAGACAGAAAATGATATAG
i dasNov3.JH578070          C 0 I 51
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=171901.000000
s hg38.chr21_GL383579v2_alt    195906 23 +    201197 TAATTTTGCAAATTCACTGTATG
s gorGor5.CYUI01015003v1      8330340 23 -  13858734 TAATTTTGCAAATTCAGTGTATG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344947 23 +  32716333 TAATTTTGCAAATTCACTGTATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771037 23 - 185818997 TACTTTTGCAAATTTACTGTATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411888 23 - 192294377 TACTTTTGCAAATTTACTGTATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032590 23 -  30496662 TACTTTTGCAAATTTACTGTATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544621 23 +  21915920 TACTTTTGCAAATTTACTGTATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046075 23 -  90373283 TACTTTTGCAAATTTGCTGTATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566944 23 +   7543664 TACTTTTGCAAATTTACTGTATA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575570 23 +  50472720 TAATTTTGCAAATTCACTGTGTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989866 23 -  14377064 TAATTTTGCAAATTCACTGTATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212565 23 -   9889416 TAATTTTGCAAATTCACTGTTTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760574 23 +  47401472 TAATTTTGCCAATTTACTATATA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24943372 23 -  38779656 TAATTTTGCCAATTCTCTACATG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084306 23 +  39895921 TAATTTTATCAATTCACTGTGTA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2521438 51 +   3081153 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=207559.000000
s hg38.chr21_GL383579v2_alt    195929 26 +    201197 TATACCTTGTTTTACAAACAGTTAAT
s gorGor5.CYUI01015003v1      8330363 26 -  13858734 TATACCTTGTTTTACAAACAGTTAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344970 26 +  32716333 TATACCTTGTTTTACAAACAGTTAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771060 26 - 185818997 TATATCTTGTTTTACAAATAGTTAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411911 26 - 192294377 TATATCTTGTTTTACAAATAGTTAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032613 26 -  30496662 TATATCTTGTTTTACAAATAGTTAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544644 26 +  21915920 TATATCTTGTTTTACAAATAGTTAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046098 26 -  90373283 TATATCTTGTTTTATAAATAGTTAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566967 26 +   7543664 TATATCTTGTTTTACAAATAGTTAAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575593 26 +  50472720 TATACCTTGTTTTACAAATAGTCCAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989889 26 -  14377064 TATACCTTGTTTTACAATAAGTTAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212588 26 -   9889416 TATACCTTGTTTTACAATTAGTTAAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760597 26 +  47401472 TATGCCTTATTTTACAAATAGTTAAT
i micMur3.chr31             C 0 I 45
s otoGar3.GL873528           24943395 26 -  38779656 TATGCCTTATTTTACAAATGGTTAAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084329 25 +  39895921 TATAT-GTGGTTTACAAATAGATAAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521489 26 +   3081153 TATACAATTTATTTAAAAGTGGTAAT
i dasNov3.JH578070          I 51 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=262259.000000
s hg38.chr21_GL383579v2_alt    195955 45 +    201197 CATGAAGGCCTCAAATT-TACGTAATATTCTCATGGAAG-----TCAGATC
s gorGor5.CYUI01015003v1      8330389 45 -  13858734 CATGAAGGCCTCAAATT-TACGTAATATTTTCATGGAAG-----TCAGATC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9344996 45 +  32716333 CATGAAGACCTCAAATT-TGCATAACATTTTCATGGAAG-----TCAGATC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771086 45 - 185818997 CATCAAGGCATCAAATT-TACATAAAATTTTCTTGGAAG-----TCATATC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411937 45 - 192294377 CATCAAGGCATCAAATT-TACATAAAATTTTCTTGGAAG-----TCATATC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032639 45 -  30496662 CATCAAGGCATCAAATT-TACATAAAATTTTCTTGGAAG-----TCATATC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544670 45 +  21915920 CATCAAGGCATCAAATT-TACATAAAATTTTCTTGGAAG-----TCATATC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046124 45 -  90373283 CATGAAGGCATCAAATT-TACATAACATTTTCTTGGAAG-----TCAGATC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3566993 45 +   7543664 CATCAAGACATCAAATT-TACATAAAATTTTCTTGGAAG-----TCATATC
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575619 45 +  50472720 TATCAAGGTCTCAAATT-TACATGACATTTTCATGGATG-----TCAGATA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989915 45 -  14377064 CATCAAGGCCTCAAATT-TACATGACATTTTCATGGATG-----TCAGATC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212614 45 -   9889416 CATCAAGGACTCAAATT-TACATGACATTTTCATGGATG-----TCAGATC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943421 47 -  38779656 CATCAAAGTCTCAGTTTGTACATGACATT----TGGAGGAATTTTTACATC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084354 38 +  39895921 ----AAG---TAAGGTT-TACATGACATTTGCATGGATT-----TTAGATC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521515 45 +   3081153 CTATGATGTCCCACATT-TGCAGGACATTTTCATGGATT-----TCAGATC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760623 45 +  47401472 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=449692.000000
s hg38.chr21_GL383579v2_alt    196000 58 +    201197 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CCCAAGGAGCAGAGCAAGAAGAAATTA
s gorGor5.CYUI01015003v1      8330434 58 -  13858734 TATTT-ACTTAATCACGGTAAAATTCATAAAG--------CCCAAGGAGCGGAGCAAGAAGAAATTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345041 58 +  32716333 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CTCAAGAAGCAGAGCAAGAAGAAATTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771131 58 - 185818997 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CCCAAGGAGGAGAGCAAGAAGAAATTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167411982 58 - 192294377 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CCCAAGGAGGAGAGCAAGAAGAAATTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032684 58 -  30496662 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CCCAAGGAGGAGAGCAAGAAGAAATTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544715 58 +  21915920 TATTT-GCTTAATCATGGTAAAATTCATAAAG--------CCCAAGGAGGAGAGCAAGAAGAAATTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046169 58 -  90373283 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CCCAGGGAGCAGAGCAAGAAGAAATTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567038 58 +   7543664 TATTT-ACTTAATCATGGTAAAATTCATAAAG--------CCCAAGGAGGAGAGCAAGAAGAAATTA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575664 59 +  50472720 TATTTAATTTAATCATGGTAAAACTCATAAAG--------CCCAAGGAGCAGAGAAAGAAGAAATTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13989960 58 -  14377064 TATTT-ATTTAATCATGGTAAAACTCATAAAA--------CCCAAGGAGCAGAGCAAGAAGAAATTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212659 39 -   9889416 TATTT-ATTTAATCATGGTAAAACTCATAGA---------------------------AAGAAATTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760668 58 +  47401472 TATTT-ACTTAATAGTGGTAAAAGTTCTAAAG--------TCTAAAGAGCAGAGCAAGAACAAATTA
i micMur3.chr31             I 45 I 102
s otoGar3.GL873528           24943468 58 -  38779656 TATTT-ACTTAATATTGGTAAAATTCCTAAAG--------TCTAAGGACCACAGCAATAAGAAATTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084392 58 +  39895921 CATTT-ACTTAATAGTGGTAAAATTCCTAAAC--------TCCAAGGACCACAGCAAGAAGAAGTTA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521560 66 +   3081153 TAGTC-ACTTAGTAGTAATAAAATCATTGAGAGAAAATTTTCCAAGGTCCAGGGCAAAAAGAAATTT
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=643446.000000
s hg38.chr21_GL383579v2_alt    196058 107 +    201197 CAGAAATTAAAGAGAGTAGAGGAAATCTGCTCTCATTTAAAGAAGACATATTGGATTATTCCATTGTATTGTACTATCT-ATACTACATTCTCTTCAGTACCCTGCAT
s gorGor5.CYUI01015003v1      8330492 107 -  13858734 CAGAAATTAAAGAGAGTAGAGGAAATCTGCTCTCATTTAAAGAAGACATATTGGATTATTCCATTGTATTGTACTATCT-ATACTACATTCTCTTCAGTACCCTGCAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345099 107 +  32716333 CAGAAATTAAAAAGAGTAGAGAAAATCTGCTCTCATTTAAAGAAGACATATTGGATTATTCCATTGTATTGTACTATCT-ATACTACCTTCTCTTCAGTAACCTGCAT
i nomLeu3.chr25             C 0 I 1
s rheMac8.chr3              160771189 107 - 185818997 CAGAAATTAAAGAGAGTAGAGGAAATCTGCTCTCATTTAGAGAAAACATATTGGATTATTCCATTGTATTGTACTATGT-ATACTACATTCTCTTCAGTACCCTGCGT
i rheMac8.chr3              C 0 I 1
s macFas5.chr3              167412040 107 - 192294377 CAGAAATTAAAGAGAGTAGAGGAAATCTGCTCTCATTTAGAGAAAACATATTGGATTATTCCATTGTATTGTACTATGT-ATACTACATTCTCTTCAGTACCCTGCGT
i macFas5.chr3              C 0 I 1
s macNem1.NW_012015021v1      5032742 107 -  30496662 CAGAAATTAAAGAGAGTAGAGGAAATCTGTTCTCATTTAAAGAAAACATAATGGATTATTCCATTGTATTGTACTATGT-ATACTACATTCTCTTCAGTACCCTGTGT
i macNem1.NW_012015021v1    C 0 I 1
s cerAty1.NW_012002954v1     13544773 107 +  21915920 CAGAAATTAAAGAGAGTAGAGGAAACCTGCTCTCATTTAGAGAAGACATATTGGATTATTCCATTGTATTGTACTATGT-ATACTACATTCTCTTCAGTACCCTGCGT
i cerAty1.NW_012002954v1    C 0 I 1
s chlSab2.chr2               20046227 107 -  90373283 CAGAAATTAAAGAGAGTAGAGGAAATCTGCTCTCATTTAGAGAAGACATATTGGATTATTCCATTGTATTGTACTATGT-ATACTACATTCTCTTCAGTACCCTGCAT
i chlSab2.chr2              C 0 I 1
s manLeu1.NW_012103476v1      3567096 107 +   7543664 CAGAAATTAAAGAGAGTAGAGGAAATCTGCTCTCATTTAGAGAAGACATATTGGATTATTCCATTGTATTGTACTATGT-ATACTACATTCTCTTCAGTACCCTGCGT
i manLeu1.NW_012103476v1    C 0 I 1
s calJac3.chr21              26575723  94 +  50472720 CA--------------TAGAGGAAATCTGCTCTCATTTAAAGAAGATATATTGGATTGTTCCATTGTATTGCACTATTGAATACTATATTCTCTTCAGCACCCTGCAT
i calJac3.chr21             C 0 I 1
s cebCap1.NW_016107322v1     13990018  93 -  14377064 CA--------------TAGAGGAAATCTGCTCTCATTTAAAGAAGATATACTGGATTATTCCATTGTATTGTACTATTG-ATACTATATTCTATTCAGCACCCTGCAT
i cebCap1.NW_016107322v1    C 0 I 1
s aotNan1.NW_018487195v1      9212698  93 -   9889416 CA--------------TAGAGGAAATCTGCTCTCATTTAAAGAAGATATATTGGATTATTCCATTGTATTGTACTACTG-ATACTATATTCTATTTAGCACCCTGCAT
i aotNan1.NW_018487195v1    C 0 I 1
s otoGar3.GL873528           24943526  96 -  38779656 ------AGAATCAGAGTAAAGAAAATCTAGCA----TTAAAGAAAACATATTGGCTTACTCCATTGTATCTTCCTATCC-ATGCCAGCTTCTCTGTAATACCCTA-AT
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18084450  98 +  39895921 ------AGGAATAGAGTACAGGAAATCTG---TCACACAAAAAAGATGTATTGACTTTTTCAATTGCATTTTACTATTT-ATGCCTTCATCTTTTTAGGACCCTGAAT
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2521626  94 +   3081153 ------AGGATCAGAGTAGAGGAAATCTCCAGGCATTCA-ATAAGTTATATTGGCTTATACCACTGTACT------TTT-AGGACTTCTTCTTTTTAGAACTCTGAGT
i dasNov3.JH578070          C 0 I 1
e micMur3.chr31              23760726 102 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933  33 +  46275980 I
e panTro5.chr21               8807826   0 +  33445071 C

a score=445824.000000
s hg38.chr21_GL383579v2_alt    196165 56 +    201197 AATTACAGTACAGAATAGCTCTTGTAAATATCGCCTACAAAAAATTCTATTATTAA
s gorGor5.CYUI01015003v1      8330599 56 -  13858734 AATTGCAGTACAGAATAGCTCTTGTAAATATCACCTACAATAAATTCTATTATTAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345207 56 +  32716333 AATTACAGTACAGAATAGCTCTTGTAAATATCGCCTACAATAAATTCTATTATTAA
i nomLeu3.chr25             I 1 C 0
s rheMac8.chr3              160771297 56 - 185818997 AATTACAGTGCAGAATAGCTCTTGTAAACATTGCCTACAATAAATTATATTATTAA
i rheMac8.chr3              I 1 C 0
s macFas5.chr3              167412148 56 - 192294377 AATTACAGTGCAGAATAGCTCTTGTAAACATTGCCTACAATAAATTATATTATTAA
i macFas5.chr3              I 1 C 0
s macNem1.NW_012015021v1      5032850 56 -  30496662 AATTACAGTGCAGAATAGCTCTTGTAAACATTGCCTACAATAAATTATATTATTAA
i macNem1.NW_012015021v1    I 1 C 0
s cerAty1.NW_012002954v1     13544881 56 +  21915920 AATTACAGTGCAGAATAGCTCTTGTAAACATTGCCTACAATAAATTATATTATTAA
i cerAty1.NW_012002954v1    I 1 C 0
s chlSab2.chr2               20046335 56 -  90373283 AATTACAGTGCAGAATAGCTCTTGTAAATATTGCCTACAATAAATTATATTATTAA
i chlSab2.chr2              I 1 C 0
s manLeu1.NW_012103476v1      3567204 56 +   7543664 AATTACAGTGCAGAATAGCTCTTGTAAACATTGCCTACAATAAATTATATTATTAA
i manLeu1.NW_012103476v1    I 1 C 0
s calJac3.chr21              26575818 53 +  50472720 AATTACAGGACAGAATTGCGCTTGTAAATATTGCCTAAAATAGATTC---TATTAA
i calJac3.chr21             I 1 C 0
s cebCap1.NW_016107322v1     13990112 56 -  14377064 AATTACAGTACAGAATAGCTCTCGTAAATATTGCCTATAGTAGATTCTGTTATTAA
i cebCap1.NW_016107322v1    I 1 C 0
s aotNan1.NW_018487195v1      9212792 56 -   9889416 AATTACAGTGCAGAATAGCTCTTGCAAATATTGCCTACAATAGATTCTGTTATTAA
i aotNan1.NW_018487195v1    I 1 C 0
s micMur3.chr31              23760828 56 +  47401472 AATTACAGTTCATAATAACTCTTGTAAATATTGTCTACAATAAATTCTGTTATTAA
i micMur3.chr31             I 102 I 114
s otoGar3.GL873528           24943623 49 -  38779656 AATTATAGTTCACAATAGCTCTTATAAATGTTGTCTAGA-------TTGTTATTAA
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18084549 56 +  39895921 CATTGTAACACATACTACCTCTTGTAAATATTGTCTAGAATAAATTCAGTAATTAA
i canFam3.chr31             I 1 I 9
s dasNov3.JH578070            2521721 55 +   3081153 AATTACAGTTCATTATAGTTCTTGTGAATATTGTCCAGAAAAAAT-CTGTTATTAA
i dasNov3.JH578070          I 1 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=608213.000000
s hg38.chr21_GL383579v2_alt    196221 125 +    201197 GGTAAACTCACATTTGAAAAAATAATCCATTTA-CAAATGT-ATGCTATTTTCCTTGTAAATATCTTGTATCA---CACTATTAAA-TTATGAATCATGG--CTGCATCTAAG-CTTAATCCATTGTCTAAAAA
s gorGor5.CYUI01015003v1      8330655 125 -  13858734 GGTAAACTCACATTTGAAAAAATAATCCATTTA-AAAATAT-ATGCTCTTTTCCTTGTAAATATCCTGTATCA---CACTATTAAA-TTATGAATCATGG--CTGCATCTAAG-CTTAATCCATTGTCTAAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345263 125 +  32716333 GGTAAACTCACATTTGAAAAAATAATCCATTTA-AAAATGT-ATGCTATTTTCCTTGTAAATATCCTGTATCT---CACTATTAAG-TTATGAATCATGG--CTGCATCTAAG-CTTAATCCATTGTCTACAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771353 125 - 185818997 GGTAAACTCAGAATCGAAAAAATAATCTATTTT-AAAATGT-ATGCTCTTTTCCTTGTAAATATCCTGTATCA---CGCTATTAAA-TTATGAGTCATGG--CTAAATCTAAG-CTTCATCGATTGTCTAAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412204 125 - 192294377 GGTAAACTCAGAATCGAAAAAATAATCTATTTT-AAAATGT-ATGCTCTTTTCCTTGTAAATATCCTGTATCA---CACTATTAAA-TTATGAGTCATGG--CTAAATCTAAG-CTTCATCGATTGTCTAAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5032906 125 -  30496662 GGTAAACTCAGAATCGAAAAAATAATCTATTTT-AAAATGT-ATGCTCTTTTCCTTGTAAATATCCTGTATCA---CACTATTAAA-TTATGAGTCATGG--CTAAATCTAAG-CTTCATCGATTGTCTAAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13544937 125 +  21915920 GGTAAACTCAGAATCGAAAAAATAATCTATTTT-AAAATGT-ATGCTCTTTTCCTTGTAAATATCCTGTGTCA---CACTATTAAA-TTATGAGTCATGG--CTAAATCTAAG-CTTCATCGATTGTCTAAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046391 126 -  90373283 GGTAAACTCAGAATTGAAAAAATAATCTATTTTAAAAATGT-ATGCTCTTTTCCTTGTAAATATCCTGTATCA---CACTATTAAA-TTATGAGTCATGG--CTGAATCTAAG-CTTAATTGATTGTCTAAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567260 125 +   7543664 GGTAAACTCAGAATCGAAAAAATAATCTATTTT-AAAATGT-ATGCTCTTTTCCTTGTAAATATCCTGTATCA---CACTATTAAA-TTATGAGTCATGG--CTAAATCTAAG-CTTCATCGATTGTCTAAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575871 121 +  50472720 GGTAAATTCACAATTGAAAAAATAAATCATT-A-AAAATGC-AGGCTACTGTACCTGTAAATATCCTGTATGAAATAATTATGAAA-TTATGAGTCATGG--CTGTAACTA-------ATGAATTATGTAAAAA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990168 122 -  14377064 GGTAAACTCATAATTGAAAAAATAATTCATTAA-AAAATGC-ATGTTACTGTACCTGTAAATATCCTGTATGAAATAATTATGAAA-TTATGAGTCATGG--TTGCAACTA-------ATCAATTGTCTAAAAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212848 121 -   9889416 GGTAAACTCATAATTG-AAAATTAATTCATTAA-AAAATGC-ATGCTATTGTACTTGTAAATATCCTGTATGAAATAATTATGAAA-TTATGAGTCATGG--TTGCAACTA-------ATCAATTATCTAAAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943672  90 -  38779656 -TTAAATTCATAAGGGGAAAAT--ACCCATTAA-AA------ATGCCACACTTCCTAAGAATATCCTGTA----------------------AATAATGA--CTGCATCTAAG-TCTAATCAGTA---------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084614 102 +  39895921 ---------------GGAAAAAT--TCCATTTG-AAAAA---ATTACCTTACCCTAATGAATATCTGAAATCA---CACTATCAAATTTATAAGCCACTG--CTGGATCTAAG-ACCAGTAAAC-GTCTA----
i canFam3.chr31             I 9 C 0
s dasNov3.JH578070            2521776 127 +   3081153 AATAAACTCATAATAGGAAAAA--ATCCATTTG-AAAGCATCATGTTACTCTTCTTATGAATATCCTGTATCA---CACACAAAAA-TTATAAATCATGGCTCTATATCTAAGTCTTAATCAATTGTCTAAAAG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23760884 114 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933  33 +  46275980 I
e panTro5.chr21               8807826   0 +  33445071 C

a score=711536.000000
s hg38.chr21_GL383579v2_alt    196346 96 +    201197 TTCTAAATATTTCTAATTCAATCATATTAATTATTTGTCATCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAATTGATGGTAAAATGTGTTAT
s gorGor5.CYUI01015003v1      8330780 96 -  13858734 TTATAAATATTTCTAGTTCAATCATATTAATTATTTGTCATCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAATTGGTGGTAAAATATGTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345388 96 +  32716333 TTCTAAATATTTCTAATGCAATCATATTAATTATTTGTCATCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAATTGATGGTAAAATGTGTCAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771478 96 - 185818997 TTCTAAATATTTCTAATTCAATCACATTAATTATTTGTCACCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAAGTGGTGGTAAAATGTGTTAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412329 96 - 192294377 TTCTAAATATTTCTAATTCAATCACATTAATTATTTGTCACCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAAGTGGTGGTAAAATGTGTTAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033031 96 -  30496662 TTCTAAATATTTCTAATTCAATCACATTAATTATTTATCACCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAAGTGGTGGTAAAATGTGTTAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545062 96 +  21915920 TTCTAAATATTTCTAATTCAATCACATTAATTATTTGTCACCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAAGTGGTGGTAAAATGTGTTAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046517 96 -  90373283 TTCTAAATATTTCTAATTCAATCACATTAATTATTTGCCATCTTTAGATATGATCAATTAGTAAAGAAAGAGAAAAGTGGTGGTAAAATGTGTTAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567385 91 +   7543664 TTCTAAATATTTCTAATTCAATCACATTAATTATTTGTCACCTTTAGATATGATCAATTAGTAAAGA-----AAAAGTGGTGGTAAAATGTGTTAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26575992 96 +  50472720 TTCTAAATATGTTTAATTCAATCATATTAATTATTTGCCATCTTTAGATATGACCAATCAGTAAAAAAATAAAAAATTGATGGTAAAATGTGTTAT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990290 95 -  14377064 TT-GAAATATTTCTAAATCAATCATATTAATTATTTGCCATCTTTAGATGTGACCAATTAGTAAAAAAAGAAAAAATTGATGGTTAAATGTGTTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9212969 95 -   9889416 TC-AAAATATTTCTAAATCAATCATATTAATTATTTGCCATCTTTAGATATGACCAATTAGTAAAAAAAGAAAGAAATGATGGTAAAATGTGTTAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23760998 94 +  47401472 TTCCAAATGTTTCTAGTTCAACCATATTAACTATTTCCCATCTTTAGATATGATCAGTTAG--AAAAAAGGGGAAATTAATGGTAAAATATGTTAT
i micMur3.chr31             I 114 I 35
s otoGar3.GL873528           24943762 94 -  38779656 TTTTAAATGTTTCAAGTTCAACCATATTAAACATTTGTAATATTTATAGATGATTACTTAG--AAAAGAGGAAAACTTAATGGCAAGATATGTTGa
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18084716 95 +  39895921 TTCTAAACATTTCTAGTCCAAATATATCAAATATTTGCTATTAGTTAATACGACCA-TTAAAAAAGAAAAGGGACACTAATAGCAAAATATGATAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521903 87 +   3081153 CTTGAAATGTTTCTAATTTAATCATATTACATATTTGCTATCTTTGAATG----CAATTATAAAGGGAATGAGAAATTAAAGATAAAACAT-----
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826  0 +  33445071 C

a score=19110.000000
s hg38.chr21_GL383579v2_alt    196442 2 +    201197 TT
s gorGor5.CYUI01015003v1      8330876 2 -  13858734 TT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345484 2 +  32716333 TT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771574 2 - 185818997 TT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412425 2 - 192294377 TT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033127 2 -  30496662 TT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545158 2 +  21915920 TT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046613 2 -  90373283 TT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567476 2 +   7543664 TT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576088 2 +  50472720 TT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990385 2 -  14377064 TT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9213064 2 -   9889416 TT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943857 2 -  38779656 tt
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18084811 2 +  39895921 TT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521990 2 +   3081153 TT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761092 35 +  47401472 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I
e panTro5.chr21               8807826 0 +  33445071 C

a score=180701.000000
s hg38.chr21_GL383579v2_alt    196444 29 +    201197 AAAAAATACTACGATTTAGCAAGAAAGCC
s panTro5.chr21               8807826 29 +  33445071 aaaaaaTACTACGATTTAGCAAGAAAGCA
i panTro5.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330878 25 -  13858734 AAAAAA---TACGATTTAGCAAGAAAGC-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345486 28 +  32716333 AAAAAATATTACGATTTAGCAAGAAAGC-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771576 28 - 185818997 TTAAAATATTAAGATTTAGCAAGAAAGC-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412427 28 - 192294377 TTAAAATATTAAGATTTAGCAAGAAAGC-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033129 28 -  30496662 TTAAAATATTAAGATTTAGCAAGAAAGC-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545160 28 +  21915920 TTAAAATATTAAGATTTAGCAAGAAAGC-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046615 28 -  90373283 TAAAAATATTAAGATTTATCAAGAAAGC-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567478 28 +   7543664 TTTAAATATTAAGATTTAGCAAGAAAGC-
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576090 28 +  50472720 AAACAATATTAAGATTTAGCAAGAAAGC-
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990387 28 -  14377064 AAAAAATACTAAGATTTATCAAGAAGGC-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9213066 28 -   9889416 TAAAAATATTAAAATTTAGCAAGAAAGC-
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943859 23 -  38779656 ttaatatattaaaatttaGGGAG------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084813 26 +  39895921 ATAAAATATTAAGATTTGAGAAAACA---
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2521992 28 +   3081153 CTAAAATATTAAGATTTAGAAAGAAAGA-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761092 35 +  47401472 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e panPan2.chr21              22346933 33 +  46275980 I

a score=45564.000000
s hg38.chr21_GL383579v2_alt    196473 13 +    201197 AAAAAAAAAT---GGG
s panTro5.chr21               8807855 16 +  33445071 AAAAAAAAAAAAAGGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346966 13 +  46275980 aaaaaaaaaa---GGG
i panPan2.chr21             I 33 C 0
s gorGor5.CYUI01015003v1      8330903 12 -  13858734 -AAAAAAAAT---GGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345514 13 +  32716333 AAAAAAAAAT---GGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771604 13 - 185818997 AAAAAATGAT---GGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412455 13 - 192294377 AAAAAATGAT---GGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033157 13 -  30496662 AAAAAATGAT---GGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545188 13 +  21915920 AAAAAATGAT---GGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046643 13 -  90373283 AAAAAATGGT---GGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567506 13 +   7543664 AAAAAATGAT---GGG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576118 10 +  50472720 ---ACATAAT---CAG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990415 13 -  14377064 AAAAAATAAT---CAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9213094 13 -   9889416 AAAAAATAAT---CAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943882  9 -  38779656 AAAAAACAG-------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084839  8 +  39895921 -AAGAACAG-------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522020 13 +   3081153 AATAATAAAC---TGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761092 35 +  47401472 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=392291.000000
s hg38.chr21_GL383579v2_alt    196486 40 +    201197 ATTTTAATGGGTTTAGTAGATCTGTGTAGTCAACAC--AGAG
s panTro5.chr21               8807871 40 +  33445071 ATTTTAATGGGTTTAGTAGATCTGTGTAGTCAACAC--AGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22346979 40 +  46275980 ATTTTAATGGGTTTAGTAGATCTGTGTAGTCAACAC--AGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330915 42 -  13858734 ATTTTAATGGGTTTAGTAGATCTGTGTAGTCAACACAGAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345527 42 +  32716333 ATTTTAATGGGTTTAGTAGATCTGTGTAGTCAACACAGAGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771617 42 - 185818997 ATTTGAATGGGTTTAGTAGGTCTATGTAGTCAACACAGAGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412468 42 - 192294377 ATTTGAATGGGTTTAGTAGGTCTATGTAGTCAACACAGAGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033170 42 -  30496662 ATTTGAATGGGTTTAGTAGGTCTATGTAGTCAACACAGAGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545201 42 +  21915920 ATTTGAATGGGTTTAGTAGGTCTGTGTAGTCAACACAGAGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046656 42 -  90373283 ATTTGAATGGGTTTAGTAGGTCTGTGTAGTCAACACAGAGAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567519 42 +   7543664 ATTTGAATGGGTTTAGTAGGTCTGTGTAGTCAACACAGAGAG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576128 37 +  50472720 ATTTGAATGGG-ATAGTAG----GTGTAGTCAACATAGAGGG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990428 42 -  14377064 GTTTGAATGGGTTTGGTAGATCTGTGTAGTCAACACAGAGGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9213107 42 -   9889416 ATTTGAATGGGTTTAATAGATCTGTGTAGTCAACACAGAGGG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23761127 40 +  47401472 ATTTTAAGGGGTTTAGTAGATCTGTGTAGTTTACACAGAG--
i micMur3.chr31             I 35 I 172
s otoGar3.GL873528           24943891 40 -  38779656 ATTTGAAGGCTTTAAATAGATCTGTGCAGTTGACACTGCA--
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084847 42 +  39895921 ATTGAAAGAGGTTTAGTGAATCTATATAGTCAACACAAAGAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522033 40 +   3081153 ATTTAACTGTTTTGGATAGAACTATGTAATCAACACAGAG--
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=226754.000000
s hg38.chr21_GL383579v2_alt    196526 38 +    201197 -AAA----------------CA-------------CTGTGCTTTATG----CATCCTTTTAGA--AACTGTTCA
s panTro5.chr21               8807911 38 +  33445071 -AAA----------------CA-------------CTGTGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347019 38 +  46275980 -AAA----------------CA-------------CTGTGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330957 38 -  13858734 -AAA----------------CA-------------CTGTGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345569 27 +  32716333 -AAA----------------CA-------------CTGTG---------------CTTTTAGA--AACTGTTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771659 38 - 185818997 -AAA----------------CA-------------CTATGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412510 38 - 192294377 -AAA----------------CA-------------CTATGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033212 38 -  30496662 -AAA----------------CA-------------CTATGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545243 38 +  21915920 -AAA----------------CA-------------CTATGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046698 38 -  90373283 -AAA----------------CA-------------CTATGCTTTATG----CATCCTTTTAGA--AACTCTTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567561 38 +   7543664 -AAA----------------CA-------------CTATGCTTTATG----CATCCTTTTAGA--AACTGTTCA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576165 50 +  50472720 -AAACATCCGGGA----TGTCA-------------CTGAGCTTCATA----AATCCTTTCAGA--AACTGTTCA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990470 50 -  14377064 -AAACAGCCAGGC----TATCA-------------CTGTGCTTCGTA----AATCCTTTTGGA--AACTGTTCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9213149 50 -   9889416 -AAACATCCAGGA----TGTCA-------------CTGTGCTTCATA----AATCCTTTTGGA--AACTGTTCA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24943931 26 -  38779656 -----------------------------------------TTTCTG----TATCCTGTTAGT--AACAGTTC-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084889 50 +  39895921 -AAA----------------CATCTAGTGGGCTGTCTCTGCTTTATG----CAACTTCTTAGT--AACTGTTC-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522073 60 +   3081153 GAAAGTTTCTGGAGGATTAGCA-------------CTATGTCCTATGGGGACATTTTTTTAAAATAACTGTTT-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761167 172 +  47401472 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=1153509.000000
s hg38.chr21_GL383579v2_alt    196564 123 +    201197 AGACACTACAACAT--TTGACGAATGATAGCTGCTAATGTTATTCAATGTAGGATTTTCTG-TTGCTGGACCTTGGCTGAAGGTCACATTTGTAAGTGAATTGGCG---TAACATGAAAGTAATAGAAG
s panTro5.chr21               8807949 123 +  33445071 AGACACTACAACAT--TTGACGAATGATAGCTGCTAATGTTATTCAATGTAGGATTTTCTG-TTGCTGGACCTTGGCTGAAGGTCACATTTGTAAGTGAATTGGCG---TAACATGAAAGTAATAGAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347057 123 +  46275980 AGACACTACAACAT--TTGACGAATGATAGCTGCTAATGTTATTCAATGTAGGATTTTCTG-TTGCTGGACCTTGGCTGAAGGTCACATTTGTAAGTGAATTGGCG---TAACGTGAAAGTAATAGAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8330995 123 -  13858734 AGACACTACAACAT--TTGACGAATGATAGCTGCTAATGTTATTCAATGTAGGATTTTCTG-TTGCTGGACCTTGGCTGAAGGTCACATTTGTAAGTGAATTGGCA---TAACATGAAAGTAATAGAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345596 123 +  32716333 AGACACTACAACAT--TTGACGAATGATAGCTGCTAATGTCATTCAATGTAGGATTTTCTG-TTGCTGGACCTTGGCTGAAGGTCACATTTGTAACTGAATTGGCA---TATCATGAAAGTAACACAAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771697 124 - 185818997 AGACACTACAATGT--TTGACAAGTGATAGCTGTTAAAATTATTCAATGTAGGATTTTCTGATTGCTGAACCTTGGCTGAAGGTCACATTCGTAAGTGAATTGGCA---GGGCATGAAAATAACAGAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412548 124 - 192294377 AGACACTACAATGT--TTGACAAGTGATAGCTGTTAAAATTATTCAATGTAGGATTTTCTGATTGCTGAACCTTGGCTGAAGGTCACATTCGTAAGTGAATTGGCA---GGGCATGAAAATAACAGAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033250 124 -  30496662 AGACACTACAATGT--TTGACAAGTGATAGCTGTTAAAATTATTCAATGTAGGATTTTCTGATTGCTGAACCTTGGCTGAAGGTCACATTCGTAAGTGAATTGGCA---GGGCATGAAAATAACAGAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545281 124 +  21915920 AGACACCACAATGT--TTGACAAGTGATAGCTGTTAAAATTATTCAATGTAGGATTTTCTGATTGCTGAACCTTGGCTGAAGGTCACATTCGTAAGTGAATTGGCA---GGGCATGAAAATAACAGAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046736 124 -  90373283 AGACACTACAATGT--TTGACAAGTGATGGCTGTTAATATTATTCAATGTAGGATTTTCTGATTGCTGAACCTTGGCTGAAGGTCACATTCGTAAGTGAATTGGCA---GGACATGAAAATAACAGAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567599 124 +   7543664 AGACACTACAATGT--TTGACAAGTGATAGCTGTTAAAATTATTCAATGCAGGATTTTCTGATTGCTGAACCTTGGCTGAAGGTCACATTCGTAAGTGAATTGGCA---GGGCATGAAAATAACAGAAG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576215 124 +  50472720 AGACAGTACAAAGT--TTGGCACATGATAGCTGCTAATATTATTCAGTATAGGATTTTCTGGTTGCAGGACCATGGCTAAAGCTTACATTTGTATGTGAATTAGTA---TAACATGAAAATAACAGAAG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990520 124 -  14377064 AGACAGTACAGAGT--TTGACAAATGATGGTTGTTAATATTAGTCAATGTAGGATTTTCTGATTGCTGGACCTTGGCTGAAGGTCACATTTGTAAGTGAATTAGCA---TAACATGAAATTAACAGAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9213199 124 -   9889416 AGACAGTACAAAGT--TTGACAAATGATAGCTGCTAATATTATTCAATGTAGGATTTTCTGATTGCTGGACCTTGGCTGAAGATCACATTTATAAGTGAATTAGCA---TAACATGAAATTAACAGAAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23761339 124 +  47401472 AGACACTATAATAT--CTGACAAATGATAGATGCTAAAGTTATTTAGTGTAGGATTTTCTGGTTGTTGAACATCGGTTGCAGGTCACATATGTAGGTGAAGTGGAG---TAACATTAAAAGAGCATAAG
i micMur3.chr31             I 172 C 0
s otoGar3.GL873528           24943957 126 -  38779656 AGACAATAGAATGT--CTGACAAATGATGGCTGCTGAAGTTATTCAGTGTA-AATTTTGCAGTTATTGAACATTGGTTGAAGCTCACAAACGTAGGTGAAATAATGTCATAATATTAAAAGTGTATAAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18084939 110 +  39895921 -----CTACATTGTACCTGACAAATGATATC-ACTGAAGCTA----------GTTTTTCTCATTGTTTGATGTTGACTGAAGGTTAAGTGTATAAGTAAAGCAGTA---TAACATTAAAATAGCATAAG
i canFam3.chr31             C 0 I 204
s dasNov3.JH578070            2522133 122 +   3081153 --CCAGTATAGTGT--CTGCCAAATCATAACTTTTAGAGTTAGACATTGTTAGATTTTCAGGTTATTGGACATTGGTTGAAAGTGACATATAAAAGAGAAGTGGTA---TGACATTAAAATATCATACA
i dasNov3.JH578070          C 0 C 0
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=77264.000000
s hg38.chr21_GL383579v2_alt    196687 7 +    201197 CAAAATA
s panTro5.chr21               8808072 7 +  33445071 CAAAATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347180 7 +  46275980 CAAAATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331118 7 -  13858734 CAAAATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345719 7 +  32716333 CAAAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771821 7 - 185818997 CAAAATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412672 7 - 192294377 CAAAATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033374 7 -  30496662 CAAAATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545405 7 +  21915920 CAAAATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046860 7 -  90373283 CAAAATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567723 7 +   7543664 CAAAATA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576339 7 +  50472720 CACAATA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13990644 7 -  14377064 CAAAATA
i cebCap1.NW_016107322v1    C 0 I 929
s aotNan1.NW_018487195v1      9213323 7 -   9889416 CAAAATA
i aotNan1.NW_018487195v1    C 0 I 41
s micMur3.chr31              23761463 7 +  47401472 CAAAATA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24944083 7 -  38779656 CAAAATA
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2522255 6 +   3081153 -CAAACA
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18085049 204 +  39895921 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=21238.000000
s hg38.chr21_GL383579v2_alt    196694 6 +    201197 TTAGTA
s panTro5.chr21               8808079 6 +  33445071 TTAGTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347187 6 +  46275980 TTAGTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331125 6 -  13858734 TTAGTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345726 6 +  32716333 TTAATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771828 6 - 185818997 TTCATA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412679 6 - 192294377 TTCATA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033381 6 -  30496662 TTCATA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545412 6 +  21915920 TTCATA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046867 6 -  90373283 TTCATA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567730 6 +   7543664 TTCATA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576346 6 +  50472720 TTCATA
i calJac3.chr21             C 0 C 0
s micMur3.chr31              23761470 6 +  47401472 TTCAGA
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24944090 4 -  38779656 TCC--T
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2522261 4 +   3081153 --TGTA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085049 204 +  39895921 I
e aotNan1.NW_018487195v1      9213330 41 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=443764.000000
s hg38.chr21_GL383579v2_alt    196700 53 +    201197 GTCATATAAAATATTTTTAACCATAGCAGTGGTGGAATAGGAAACTATTCAAA
s panTro5.chr21               8808085 53 +  33445071 GTCATATAAAATATTTTTAACCATAGCAGTGGTGGAATAGGAAACTATTCAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347193 53 +  46275980 GTCATATAAAATATTTTTAACCATAGCAGTGGTGGAATAGGAAACTATTCAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331131 53 -  13858734 GTCATATAAAATATTTTTAACCATAGGAGTGGTGGAATAGGAAACTATTCAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345732 53 +  32716333 GTCATATAAAATATTTTTAACCATAGCAGTAGTGGAATAGGAAACTATTCAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771834 53 - 185818997 GTCATGTGAAATATTTTTAACCATAGCAGTGGTGGAATAGGGAACTATTCAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412685 53 - 192294377 GTCATGTGAAATATTTTTAACCATAGCAGTGGTGGAATAGGGAACTATTCAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033387 53 -  30496662 GTCATGTGAAATATTTTTAACCATAGCAGTGGTGGAATAGGGAACTATTCAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545418 53 +  21915920 GTCATGTGAAATATTTTTAACCATAGCAGTGGTGAAATAGGGAACTATTCAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046873 53 -  90373283 GTCATGTGAAATATTTTTAACCACAGCAGTGGTGGAATAGGGAACTATTCAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567736 53 +   7543664 GTCATGTGAAATATTTTTAACCATAGCAGTGGTGGAATAGGGAACTATTCAAA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576352 53 +  50472720 GTCATATAAAATATTTTTAATCATAGTAGTGGTGGAAGAGGGAACTATTCAAA
i calJac3.chr21             C 0 C 0
s micMur3.chr31              23761476 53 +  47401472 GTCTTATAAAATATTTTCAGCCATAGCTGTGGTGGAACAGGGAGCTATTCAAA
i micMur3.chr31             C 0 I 59
s otoGar3.GL873528           24944094 51 -  38779656 GTCATATGAAATATTTTTAGCC--AGTTGTGGTGGAATAGGGAAATTTTCAAA
i otoGar3.GL873528          C 0 I 2
s canFam3.chr31              18085253 43 +  39895921 GTCATATAAAATATTTTTAGTAATAGTCATAATGGAATAGGCA----------
i canFam3.chr31             I 204 C 0
s dasNov3.JH578070            2522265 53 +   3081153 ATCAAACCAAATATATCTAGCCACAGTGGTTGTGATATAGGTAGCTCTTAAAA
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213330 41 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=283376.000000
s hg38.chr21_GL383579v2_alt    196753 57 +    201197 GGTGGGTGGGGGGAAAGCTAGTTtttatttatttatttatt-----tatttTTGAAACGTGG
s panTro5.chr21               8808138 57 +  33445071 GGTGGGTGGGGGGAAAGCTAGTTtttatttatttgtttatt-----tatttTTGAAACGTGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347246 57 +  46275980 GGTGGGTGGGGGGAAAGCTAGTTtttatttatttatttatt-----tatttTTGAAACATGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331184 53 -  13858734 GGTGGGTGAGGGGAAAGCTAGTTTTGATTTA----TTTATT-----TATTTTTGAAACGTGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345785 57 +  32716333 GGTGGGTGGCGAGAAAGCTAGTTttgatttatttatttatt-----tatttTTGAAATGTGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771887 53 - 185818997 GGTGGGTGGGGGAAAAGCTAATTTCGATTTA----TTTATT-----TAATTTTGAAATGTGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412738 53 - 192294377 GGTGGGTGGGGGAAAAGCTAATTTCGATTTA----TTTATT-----TAATTTTGAAATGTGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033440 53 -  30496662 GGTGGGTGGGGGAAAAGCTAATTTCGATTTA----TTTATT-----TAATTTTGAAATGTGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545471 53 +  21915920 GGTGGGTGGGGGAAAAGCTAATTTCGATTTC----TTTATT-----TAATTTTGAAATGTGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046926 53 -  90373283 GGTGGGTGGGGGAAAAGCTAATTTCGATTTA----TTTATT-----TAATTTTGAAATATGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567789 53 +   7543664 GGTGGGTGGGGGAAAAGCTAATTTCGATTTA----TTTATT-----TAATTTTGAAATGTGG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576405 53 +  50472720 GGTGGGAGAAGGGAAAGCTAGTTTTGATTTA----TTTATT-----CATTTTTGAAATGTGG
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24944147 40 -  38779656 TTTGGATGGAGT---AGCTGGTT------------TTTATT-------ATTTTGAAATGTGA
i otoGar3.GL873528          I 2 C 0
s canFam3.chr31              18085296 47 +  39895921 -----------GAGAAGCTATTTTTGATTTT----TTTCTTCCTCCTACTTTTTAAATATGT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522318 42 +   3081153 ---GGGTA---GAAAATCAAGTTTTGA--------TCATCT-----TTCCCTCAAAACATG-
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761529 59 +  47401472 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213330 41 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=246602.000000
s hg38.chr21_GL383579v2_alt    196810 35 +    201197 GTTGCT---GTGAGAGGATAGGCTAAACTATT-----GG-GGAT
s panTro5.chr21               8808195 35 +  33445071 GTTGCT---GTGAGAGGATAGGCTAAACTATT-----GG-GGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347303 35 +  46275980 GTTGCT---GTGAGAGGATAGGCTAAACTATT-----GG-GGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331237 35 -  13858734 GTTGCT---GTGAGAGGATAGGCTAAACTATT-----GG-GGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345842 35 +  32716333 TTTGCT---GTGAGAGGATAGGCTAAACTATT-----GG-GGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771940 30 - 185818997 GTTGCT---ATGAGAGGATAGG-----CTATT-----GG-GGAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412791 30 - 192294377 GTTGCT---ATGAGAGGATAGG-----CTATT-----GG-GGAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033493 30 -  30496662 GTTGCT---ATGAGAGGATAGG-----CTATT-----GG-GGAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545524 30 +  21915920 GTTGCT---ATGAGAGGATAGG-----CTATT-----GG-GGAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20046979 30 -  90373283 GTTGCT---ATGAGGGGATAGA-----CTATT-----GG-GGAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567842 30 +   7543664 GTTGCT---ATGAGAGGATAGG-----CTATT-----GG-GGAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576458 35 +  50472720 GTTGCT---ATGAGAGGATAGGCTAAGTAATT-----GG-GGAT
i calJac3.chr21             C 0 C 0
s micMur3.chr31              23761588 35 +  47401472 GTTGCT---ATGAGAGGATAGGCTAAGTTATT-----GG-GGAT
i micMur3.chr31             I 59 I 652
s otoGar3.GL873528           24944187 36 -  38779656 GTTGCT---AGGAGAGGATAGGTTAAATTATT-----GGAGGAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18085343 38 +  39895921 GTTGCTGTAATGAGAGGATATTCTAAATCATT-----GG-AGAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522360 40 +   3081153 GTTGCT---ATACAAGAATGGTATGTTCAATTAGTTGGG-GGAT
i dasNov3.JH578070          C 0 C 0
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213330 41 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=208089.000000
s hg38.chr21_GL383579v2_alt    196845 37 +    201197 GCTTTCTGATATATTAGCTTAATTTTAATACTATGTG
s panTro5.chr21               8808230 37 +  33445071 GCTTTCTGATATATTAGCTTAATTTTAATACTATGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347338 37 +  46275980 GCTTTCTGATATATTAGCTTAATTTTAATACTATGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331272 37 -  13858734 CATTTCTGATATATTAGCTTAATTTTAATACTATCTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345877 37 +  32716333 GCTTTCTGATATATTAGCTTAATTTTAATACTATCTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160771970 37 - 185818997 GCTTTGTGATATATTAGCTTAATTTTAATACTATCTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412821 37 - 192294377 GCTTTGTGATATATTAGCTTAATTTTAATACTATCTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033523 37 -  30496662 GCTTTGTGATATATTAGCTTAATTTTAATACTATCTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545554 37 +  21915920 GCTTTGTGATATATTAGCTTAATTTTAATACTATCTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047009 37 -  90373283 GCTTTGTGATATATTAGCTTAATTTTAATACTATCTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567872 37 +   7543664 GCTTTGTGATATATTAGCTTAATTTTAATACTATCTG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576493 32 +  50472720 ACTATATGGGATAT---CTTAATTTTA--ACGATCTG
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24944223 37 -  38779656 GTTTTGTGGAAAAATATCTTCATCTTAATAATATTTA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18085381 34 +  39895921 GTTTTATGA---AGAAAGTTAATATTAATGATATGCA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522400 32 +   3081153 GTTTTGTGGGAAAA-----AAATCTTATTAGTATCGA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213330 41 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=1802932.000000
s hg38.chr21_GL383579v2_alt    196882 244 +    201197 TAGACACTT--------------GGCcctttgaattagatgtgaggtggcatgtatcttactctcatgata--ccagcggacaataggagttttcacaaaagtc----taacatgtttcc---att-ctcaagagtgacacaagccagtctctgtctacatcactaattctacgatcctaagat-cttttgctatcaataagggagtcctggaaatcagtaa---caAGTG---TGGAGGCCAT---GTGAGTACA--C--TGGCACTTCTCTT--CCTACAA-G
s panTro5.chr21               8808267 244 +  33445071 TAGACACTT--------------GGCCCTTTGAATTAGATGTGAGGTGGCATGTATCTTACTCTCATGATA--CCAGCGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATT-CTCAAGAGTGACACAAGCCAGTCTCTGTCTACATCACTAATTCTAAGATCCTAAGAT-CTTTTGCCATCAATAAGGGAGTCCTGGAAATCAGTAA---CAAGTG---TGGAGGCCAT---GTGAGTACA--C--TGGCACTTCTCTT--CCTACAA-G
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347375 244 +  46275980 TAGACACTT--------------GGCCCTTTGAATTAGATGTGAGGTGGCATGTATCTTACTCTCATGATA--CCAGCGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATT-CTCAAGAGTGACACAAGCCAGTCTCTGTCTACATCACTAATTCTAAGATCCTAAGAT-CTTTTGCCATCAATAAGGGAGTCCTGGAAATCAGTAA---CAAGTG---TGGAGGCCAT---GTGAGTACA--C--TGGCACTTCTCTT--CCTACAA-G
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331309 244 -  13858734 TAGACACTT--------------GGCcctttgaattagatgtgaggtggcatgtatcttactctcatgata--ccagcagacaataggagttttcacaaaagtc----taacatgtttcc---att-ctcaagagtgacacaagccagtctctgtcttcatcactaattctaagatcctaagat-cttttgccatcaataagggagtcctggaaatcagtaa---caAGTG---TGGAGGCCAT---GTGAGTACA--C--TGGCACTTCTCTT--CCTACAA-G
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9345914 244 +  32716333 TAGACACTT--------------GGCcctttgaattagatgtgaggtggcatgaatcttactctcatgata--ccagcggacaataggagttttcacaaaagtc----taacatgtttcc---att-ctcaagagtgacacaagccagtctctgtcttcatcactaattctaagaccctaagat-cttttgccatcaataagggagtcctggaaatcagtaa---caAGTG---TGAAGGCCAT---GTGAGTACA--C--TAGCACTTCTCTT--CCTATAA-G
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772007 236 - 185818997 TAGACACTT--------------TGCCCTTTGAATTTGATGTGAGGTGGCATGCATCTTACTCTCGTGATA--CCAGTGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATT-CTCAGGAGTGACACAAGCGAGTCTCTGTCTTCATCACTAA-TCTAGGACCCTAAGAT-CTTTTGCCATCAATAAG--------GGAAATCAGTAG---CAGGGG---TGGAGGCCAT---GTGAGTACA--C--TAGCACTTCTCTT--CCTACAAGG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167412858 236 - 192294377 TAGACACTT--------------TGCCCTTTGAATTTGATGTGAGGTGGCATGCATCTTACTCTCGTGATA--CCAGTGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATT-CTCAGGAGTGACACAAGCGAGTCTCTGTCTTCATCACTAA-TCTAGGACCCTAAGAT-CTTTTGCCATCAATAAG--------GGAAATCAGTAG---CAGGGG---TGGAGGCCAT---GTGAGTACA--T--TAGCACTTCTCTT--CCTACAAGG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033560 236 -  30496662 TAGACACTT--------------TGCcctttgaatttgatgtgaggtggcatgcatcttactctcatgata--ccagtggacaataggagttttcacaaaagtc----taacatgtttcc---att-ctcaggagtgacacaagcgagtctctgtcttcatcactaa-tctaggaccctaagAT-CTTTTGCCATCAATAAG--------GGAAATCAGTAG---CAGGGG---TGGAGGCCAT---GTGAGTACA--C--TAGCACTTCTCTT--CCTACAAGG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545591 236 +  21915920 TAGACACTT--------------TGCCCTTTGAATTTGATGTGAGGTGGCATGCATCTTACTCTCGTGATA--CCAGTGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATT-CTCAGGAGTGACACAAGCGAGTCTCTGTCTTCATCACTAA-TCTAGGACCCTAAGAT-CTTTTGCCATCAATAAG--------GGAAATCAGTAG---CAGGGG---TGGAGGCCAT---GTGAGTACA--C--TAGCACTTCTCTT--CCTACAAGG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047046 237 -  90373283 TAGACACTT--------------TGCCCTTTGAATTTGATGTGAGGTGACATGCATCTTACTCTCGTGATA--CCAGTGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATC-CTCAGGAGTGACACAAGTGAGTCTCTGTCTTCATCACTAATTCTAGGACCCTAAGAT-CTTTTGCTATCAATAAG--------GGAAATCAGTAG---CAGGGg---tggaggccat---gtgagtaca--c--tagcacttctctt--cctacaagg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3567909 236 +   7543664 TAGACACTT--------------TGCCCTTTGAATTTGATGTGAGGTGGCATGCATCTTACTCTCGTGATA--CCAGTGGACAATAGGAGTTTTCACAAAAGTC----TAACATGTTTCC---ATT-CTCAGGAGTGACACAAGCGAGTCTCTGTCTTCATCACTAA-TCTAGGACCCTAAGAT-CTTTTGCCATCAATAAG--------GGAAATCAGTAG---CAGGGG---TGGAGGCCAT---GTGAGTACA--C--TAGCACTTCTCTT--CCTACAAGG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576525 246 +  50472720 TAGACACTT--------------TGCCCATTGAATTAGATGTGAAGTGGCATGTATTCTACTCTCTTGATA--CCAGTGGACAATAGGATTTTTCACAAAACTCTAATTAAT--GTTTTC---ATT-CTCAACAGTGACACAAGCCAGTCTCTGTCTTCATCACTAATTCTAAGACCCTAAGAT-ATTTTGCCACCACTAAGGGAGTCCTGGAAGTCAGTAA---CAGGtg---tgcaggccat---gtgagtaca--c--tagcgcttctttt--cctacaa-g
i calJac3.chr21             C 0 I 1
s aotNan1.NW_018487195v1      9213371 242 -   9889416 TAGACACTT--------------TGCcctttgaattagatgtgaagtggcatgtatcctactctcgtgata--ccagtagataataggatttttcacaaaaatc----taac--gttttc---att-ttcaagagtgacacaagccagtctctgtcttcatcactaattctaagaccctaagat-cttttgccaccgataagggagtcctggaagtcagtaa---caGGTG---TGCAGGCCAT---GTGAGTACA--C--TAGTGCTTCTCTT--ACTACAA-G
i aotNan1.NW_018487195v1    I 41 I 641
s otoGar3.GL873528           24944260 247 -  38779656 TAGAAGTTTTCAAAGAAAATGTCTGCCTTCTCAATTAGGTTTGAAGTGGAATGTTTATTACGTTCACGATG--CCAGCTG-------------TCACAAGTGTC---TTAGCAAGTTTTC---TTTATTTCATAGTGATACAGGGGATTCTCTAACTTCATTACTAC-TCTGTGACCCT-AGAT-CTTTTGACACTAATGAGAGAACTCTGGAAAATAGTGA---CAGGTG---TGGTGGACAC---GTATGGACA--TGGTACCATAACTCTT--CCTACAA-G
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18085415 264 +  39895921 TAAAAACTGTCAGAGAAATTCTCTGTTCCTTAAATCCAGTTTGAGATACCATGCATCTTATTCCCATTAGG--TCAGTGGACAATAGGAGTTTTCACAAAAGTA----TGAA--GTTTTC---ATG-ATTCAGAGTGATGCAAGTCAGTCTCTGATTCCACTATTAT-TCCAGCACCATATGGC-TTTTTGCCCTCAATAAGAGAGTCCTAGAAAGTAGTCA---CAAGAGGTATGGAGGA-ATGTAGTAAGCACAGTT--TTGCAGATTTATTACTCTACAA-A
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522432 265 +   3081153 TAGCAACTTTCAGAGTCAGTTTTTGCCCCTTGAAGTAGGTTTGAGGTACCTTGTACCTCACTCCCATGATGTCCCAGTGGACAATAGTAGTTTTCACAAAATTC----CACTTTTTTTTTTTAATG-CTCCAGAGTGAC-CAGGCCAGTGTCTGATTTCATCACTAC-TCTAAGACCCTAAGAGACTTGAGTCCCCAGTAGGAGAGTTCTGGAGAGCAGTAATGGCAGTCT---TAGTGGCCAT---GTGAGTGTA--C--TTACAAACCTCTG--CCTAAAG-G
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=229214.000000
s hg38.chr21_GL383579v2_alt    197126 34 +    201197 TGCACAATTGACCAAGGGCC-CGGGCTCATCCCTT
s panTro5.chr21               8808511 34 +  33445071 TGCACAATTGACCAAGGGCC-CGGGCTCATCCCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347619 34 +  46275980 TGCACAATTGACCAAGGGCC-CGGGCTCATCCCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331553 34 -  13858734 TGCACAATTGACCAAGGGCC-CGGGATCATCCCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346158 34 +  32716333 TGCACAATTGACCAAGGGCC-CTGGCTCGTCCCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772243 34 - 185818997 TGCACAATTGACCAAGGATC-CTGGATTATCCCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413094 34 - 192294377 TGCACAATTGACCAAGGATC-CTGGATTATCCCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033796 34 -  30496662 TGCACAATTGACCAAGGATC-CTGGATTATCCCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545827 34 +  21915920 TGCACAATTGACCAAGGATC-CTGGATTATCCCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047283 34 -  90373283 tgcacaattgaccaaggatc-ctggctTATCCCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568145 34 +   7543664 TGCACAATTGACCAAGGATC-CTGGATTATCCCTT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576772 34 +  50472720 cagacaattgaccaaaggcc-ctggctcatccctt
i calJac3.chr21             I 1 C 0
s otoGar3.GL873528           24944508 34 -  38779656 GATACAGTTGACCAAGGGCT-CTGACCTATTTCTC
i otoGar3.GL873528          I 1 C 0
s canFam3.chr31              18085679 33 +  39895921 -GTAGACTTGACCAAGAGTC-CTGGCTTATCCCTT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522697 35 +   3081153 CGTTCAATTGCCCAATGGCAGTTGGCTGATACTTG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=32357.000000
s hg38.chr21_GL383579v2_alt    197160 4 +    201197 GAAA
s panTro5.chr21               8808545 4 +  33445071 GAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347653 4 +  46275980 GAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331587 4 -  13858734 GAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346192 4 +  32716333 GAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772277 4 - 185818997 GAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413128 4 - 192294377 GAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033830 4 -  30496662 GAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545861 4 +  21915920 GAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047317 4 -  90373283 GAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568179 4 +   7543664 GAAA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576806 4 +  50472720 gaaa
i calJac3.chr21             C 0 C 0
s canFam3.chr31              18085712 4 +  39895921 GGAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2522732 4 +   3081153 GAAA
i dasNov3.JH578070          C 0 I 1957
e micMur3.chr31              23761623 652 +  47401472 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24944542 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=14196.000000
s hg38.chr21_GL383579v2_alt    197164 2 +    201197 AT
s panTro5.chr21               8808549 2 +  33445071 AT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347657 2 +  46275980 AT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331591 2 -  13858734 AT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346196 2 +  32716333 AT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772281 2 - 185818997 AT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413132 2 - 192294377 AT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033834 2 -  30496662 AT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545865 2 +  21915920 AT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047321 2 -  90373283 AT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568183 2 +   7543664 AT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576810 2 +  50472720 at
i calJac3.chr21             C 0 C 0
s canFam3.chr31              18085716 2 +  39895921 AT
i canFam3.chr31             C 0 I 388
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24944542 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=12012.000000
s hg38.chr21_GL383579v2_alt    197166 2 +    201197 at
s panTro5.chr21               8808551 2 +  33445071 at
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347659 2 +  46275980 at
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331593 2 -  13858734 at
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346198 2 +  32716333 at
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772283 2 - 185818997 at
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413134 2 - 192294377 at
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033836 2 -  30496662 at
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545867 2 +  21915920 at
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047323 2 -  90373283 at
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568185 2 +   7543664 at
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576812 2 +  50472720 at
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24944542 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=269542.000000
s hg38.chr21_GL383579v2_alt    197168 57 +    201197 ggcgtgaacccgggaggcagagcttgcagtgagccgagatggcgccaccgcactcca
s panTro5.chr21               8808553 57 +  33445071 ggcgtgaacccgggaggcagagcttgcagtgagccgagatggcgccactgcactcca
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347661 57 +  46275980 ggcgtgaacccgggaggcagagcttgcagtgagccgagatggcgccactgcactcca
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331595 57 -  13858734 ggcgtgaacctgggaggcagagcttgcagtgagccgagatggcgccaccgcactcca
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346200 57 +  32716333 ggcgtgaacccaggaggcggagcttgcagtgagccgagatcatgccaccgcactcca
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772285 57 - 185818997 ggcatgaacccaggaggcagagcttgcagtgagccaagatagtgccattgcactcca
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413136 57 - 192294377 ggcatgaacccaggaggcagagcttgcagtgagccaagatagtgccattgcactcca
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033838 57 -  30496662 ggcatgaacccaggaggcagagcttgcagtgagccaagatagtgccattgcactcca
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13545869 57 +  21915920 ggcatgaacccaggaggcagagcttgcagtgagccaagatagcgccattgcactcca
i cerAty1.NW_012002954v1    C 0 I 827
s chlSab2.chr2               20047325 57 -  90373283 ggcatgaacccaagaggcagagcttgcagtgagccgagatagcgccattgtactcca
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568187 57 +   7543664 ggcatgaacccaggaggcagagcttgcagtgagccaagatagcgccattgcactcca
i manLeu1.NW_012103476v1    C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e calJac3.chr21              26576814  0 +  50472720 C
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24944542  0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=4500.000000
s hg38.chr21_GL383579v2_alt    197225 1 +    201197 g
s panTro5.chr21               8808610 1 +  33445071 g
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347718 1 +  46275980 g
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331652 1 -  13858734 g
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346257 1 +  32716333 g
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772342 1 - 185818997 g
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413193 1 - 192294377 g
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033895 1 -  30496662 g
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047382 1 -  90373283 g
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568244 1 +   7543664 g
i manLeu1.NW_012103476v1    C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cerAty1.NW_012002954v1     13545926 827 +  21915920 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e calJac3.chr21              26576814 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24944542 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=148901.000000
s hg38.chr21_GL383579v2_alt    197226 57 +    201197 cctgggcgacagagcgagactccgtctcaa-------------------------------------------------aataaaaaaagaaa---gaaagaaagaaaa
s panTro5.chr21               8808611 57 +  33445071 cctgggcgacagagcgagactccgtctcaa-------------------------------------------------aataaaaaaagaaa---gaaagaaagaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347719 57 +  46275980 cctgggcgacagagcgagactccgtctcaa-------------------------------------------------aataaaaaaagaaa---gaaagaaagaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331653 54 -  13858734 cctgggcgacagagcgagactccatctcaa----------------------------------------------------aaaaaaaaaaa---gaaagaaagaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346258 50 +  32716333 cctgggagacagagcgagactccgtctcaa--------------------------------------------------------aagaaaa---aaaaaaaaggaaa
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772343 58 - 185818997 cctgggtgacagagccagactctgtctcaa-------------------------------------------------aaaaaaaaaaaaaa--aagagaaaagaaaa
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413194 58 - 192294377 cctgggtgacagagccagactctgtctcaa-------------------------------------------------aaaaaaaaaaaaaa--aagagaaaagaaaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033896 60 -  30496662 cctgggtgacagagccagactctgtctcaa-------------------------------------------------aaaaaaaaaaaaaaagaagagaaaaGAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13546753 53 +  21915920 cctgggtgacagagccaga-tctgtctcaa-------------------------------------------------aaaaaaaaaaaaaa------gaaaACAAAA
i cerAty1.NW_012002954v1    I 827 C 0
s chlSab2.chr2               20047383 55 -  90373283 cctgggtgacagagccagactctgtctcaa-------------------------------------------------aaaaaaaaaagaaa-----agaaaagaaaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568245 74 +   7543664 ------------------------------NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNaaaagaaaagaaa-----agaaaagaaaa
i manLeu1.NW_012103476v1    C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e calJac3.chr21              26576814  0 +  50472720 C
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24944542  0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=41865.000000
s hg38.chr21_GL383579v2_alt    197283 8 +    201197 GAAAATAC
s panTro5.chr21               8808668 8 +  33445071 GAAAATAC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347776 8 +  46275980 GAAAATAC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331707 8 -  13858734 caaaATAC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346308 8 +  32716333 gaaaaTAC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772401 8 - 185818997 GAAAATAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413252 8 - 192294377 GAAAATAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033956 8 -  30496662 GAAAATAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13546806 8 +  21915920 GAAAATAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20047438 8 -  90373283 gaaaaTAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568319 8 +   7543664 gaaaaTAC
i manLeu1.NW_012103476v1    C 0 C 0
s otoGar3.GL873528           24944542 8 -  38779656 AGAAATCC
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e calJac3.chr21              26576814 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=342226.000000
s hg38.chr21_GL383579v2_alt    197291 57 +    201197 ATTGCCATG----CTTGCACTACGACCAGCC-TCCCATGAGTGAGTGCAGTGCAGATCCTGA
s panTro5.chr21               8808676 57 +  33445071 ATTGCCATG----CTTGCACTAGGACCAGCC-TCCCATGAGTGAGTGCAGTGCAGATCCTGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347784 57 +  46275980 ATTGCCATG----CTTGCACTAGGACCAGCC-TCCCATGAGTGAGTGCAGTGCAGATCCTGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331715 57 -  13858734 ATTGCCATG----CTTGCACTAGGACCAGCC-TCCCATGAGTGAGTGCAGTGCAGATCCTGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346316 57 +  32716333 ATTGCCATG----CTTGCACTAGGACCAGCC-TCCCATGAGTGAGTGCAGTGCAGATCCTGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772409 57 - 185818997 ATTGCCATG----CTTGCACTAGGACAAGCC-TCCCATGAATGAGTGCAGTGGAGATCCTGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413260 57 - 192294377 ATTGCCATG----CTTGCACTAGGACAAGCC-Tcccatgaatgagtgcagtggagatcctga
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5033964 57 -  30496662 ATTGCCATG----CTTGCACTAGGACAAGCC-Tcccatgaatgagtgcagtggagatcctga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13546814 61 +  21915920 ATTGCCATGCTGCCTTGCACT-GGACAAGCCTTCCCATGAATGAGTGCAGTGGAGATCCTGA
i cerAty1.NW_012002954v1    C 0 I 420
s chlSab2.chr2               20047446 57 -  90373283 ATTGCCATG----CTTGCACTAGGACAAGCC-Tcccatgaatgagtgcagtggagatcctga
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568327 57 +   7543664 ATTGCCATG----CTTGCACTAGGACAAGCC-Tcccatgaatgagtgcagtggagatcctga
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576814 57 +  50472720 attgccggg----cttgcactagggctagcc-tcccatgaatgagtgcattggagatcttga
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24944550 56 -  38779656 ATAGCCATA----CTTACATTAAG-CCAGGC-TCCCATGAAGGAGCGCACTGGAAATCTCAA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=443907.000000
s hg38.chr21_GL383579v2_alt    197348 98 +    201197 AGCAGACAATGGTCTGCTTTCCTAGAACACTAGACTAC-TTTGAAAATGGGCCTTTGCC-CAAGGAATCCCTAAATTTGAAGAAGGTTCCCTAAAATGAA
s panTro5.chr21               8808733 98 +  33445071 AGCAGACAATGCTCTGCTTTCCTAGAACACTAGACTAC-TTTGAAAATGGGCCTTTGCC-CAAGGAATCCCTAAATTTGAAGAAGGTTCCCTAAAATGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347841 98 +  46275980 AGCAGACAATGCTCTGCTTTCCTAGAACACTAGACTAC-TTTGAAAATGGGCCTTTGCC-CAAGGAATCCCTAAATTTGAAGAAGGTTCCCTAAAATGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331772 98 -  13858734 AGCAGACAACGGTCTGCTTTCCTAGAACACCAGACTAC-TTTGAAAATGGGCCTTTGCC-CAAGGAATCCCTAAATTTGAAGAAGATTCCTTAAAATGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346373 98 +  32716333 AGCAGACAATGGTCTGCTTTCCTAGAAGACTAGACTAC-TTTGAAAATGGGCCTTTGCC-CAAGGAATCCCTAAATTTGAAGAAGGTTCCTTAAAATGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772466 98 - 185818997 CGCAGACAATGGTCTGCTTTCCTAGAAGACTAGACTACTTTTGAAAATGCGCCTTTTTC-CAA-GAATCCCTAAATTTGAAGAAGGTTCCTTAAAATGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413317 98 - 192294377 agcagacaatggtctgctttcctagaagactagactacttttgaaaatgcgcctttttc-caa-gaatccctaaatttgaagaaggttccttaaaatgaa
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5034021 98 -  30496662 agcagacaatggtctgctttcctagaagactagactacttttgaaaatgcgcctttttc-caa-gaatccctaaatttgaagaaggttccttaaaatgaa
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047503 98 -  90373283 agcagacaatggtctgctttcctaaaagactagactacttttgaaaatgcgcctttttc-caa-gaatccctaaatttgaagaaggttccttaaaatgaa
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568384 98 +   7543664 agcagacaatggtctgctttcctagaagactaggctacttttgaaaatgtgcctttttc-caa-gaatccctaaatttgaagaaggttccttaaaatgaa
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576871 90 +  50472720 aacagacca--------tttcctaggacactagactac-tttgaaaatgggctttggct-caaggaatctctaaatttgaagacgcttcctcaaaatgaa
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24944606 91 -  38779656 AGCAGATTA--------TTTCCTAGGAGACCAGATGAC-TCTGTAAGCCAATTTTTGTCTCAAAGATTTCCCAAATTTGAAGAAACTTTGTAAAAATGAA
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18085718 388 +  39895921 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=353154.000000
s hg38.chr21_GL383579v2_alt    197446 70 +    201197 AGACACTCTAACACACTTTTTTATTCTCA------------------------CTTA-----CGTGGGGTCAGAATTGTGTTGTGAGATCTAAggtctc
s panTro5.chr21               8808831 70 +  33445071 AGACACTCTAACACACTTTTTTATTCTCA------------------------CTTA-----CGTGGGGTCAGAATTGTGTTGTGAGATCTAAggtctc
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22347939 70 +  46275980 AGACACTCTAACACACTTTTTTATTCTCA------------------------CTTA-----CGTGGGGTCAGAATTGTGTTGTGAGATCTAAggtctc
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331870 70 -  13858734 AGACACTCTAACACACTTTTTAATTCTCA------------------------CTTA-----CGTGGGGTCAGAATTGCGTTGTGAGATCTAAggtctc
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346471 70 +  32716333 AGACACTCTAACCCACTTTTTTATTCTCA------------------------CTTA-----CGTGGGGTCAGAATTGCATTGTGAGATCTAAGGTCTc
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772564 70 - 185818997 AGACAGTCTAACACACTTCTTTATTCTCA------------------------CTTA-----CGTggtgtcagaattgcattgtgagatctaaggtctc
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413415 70 - 192294377 agacagtctaacacacttctttattctca------------------------ctta-----cgtggtgtcagaattgcattgtgagatctaaggtctc
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5034119 70 -  30496662 agacagtctaacacacttctttattctca------------------------ctta-----tgtggggtcagaattgcattgtgagatctaaggtctc
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047601 70 -  90373283 agacagtctaacacacttctttattctca------------------------ctta-----cgtggggtcagaattgcattgtgagatctaaggtctc
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568482 70 +   7543664 agacagtctaacacacttctttattctca------------------------ctta-----cgtggggtcagaattgcattgtgagatctaaggtctc
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26576961 70 +  50472720 aaacagtctaacacacttTGTTTTTCTCA------------------------CATT-----CATTGGGTCACAATTGCATTGTGAGATCTAAGGTctc
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24944697 74 -  38779656 AGGCAGTC-AAGAAACTTTTGTTTGTTTC------------------------TTTGTTTCCTTTGGAGTCAGAATTGCACCATGAGATTTGAAGCCCC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086106 94 +  39895921 agatgccccCACAAAACTTTCTTCtttcgttttgttttgttttgttttTTACCCTTA-----CTTGGAGCCTGAATTATATTATGCAATCTGAAGGCCA
i canFam3.chr31             I 388 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e dasNov3.JH578070            2522736 1957 +   3081153 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=514169.000000
s hg38.chr21_GL383579v2_alt    197516 90 +    201197 ctttcta--tttcctct-cacagccgtgcttcctctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatatagc---
s panTro5.chr21               8808901 90 +  33445071 ctttcta--tttcctct-cacagccgtgcttcctctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatatagc---
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348009 90 +  46275980 ctttcta--tttcctct-cacagccgtgcttcctctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatatagc---
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8331940 90 -  13858734 ctttcta--tttcctct-cacagccgtgcttcccgtcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgtagc---
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346541 86 +  32716333 ----cta--tttcctct-cacagccgtgcttcccctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgcagc---
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772634 90 - 185818997 ctttcta--tttcctct-cgcagcagcgcttcccctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgtagc---
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413485 90 - 192294377 ctttcta--tttcctct-cgcagcagcgcttcccctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgtagc---
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5034189 90 -  30496662 ctttcta--tttcctct-cgcagcagcgcttcccctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgtagc---
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047671 90 -  90373283 ctttcta--tttcctct-cgcagcagcgcttcccctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgtagc---
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568552 90 +   7543664 ctttcta--tttcctct-cgcagcagcgcttcccctcataaattccttgaacattttatcctttcctggcatctgcttctctgaggatgtagc---
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577031 90 +  50472720 ctttcta--tttcctct-catagcagtgtttcctctcataaattccttgaacatttacccctttcctggcatctacttctctgaggatgtaga---
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24944771 85 -  38779656 CTCCATA--TTCTCTTT-TGCACAAGTATTTAC-CTTATAAATTACTTAGGAATTGAATC----TCTGACACCTACTTCTCTGAGGACTTAGA---
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086200 90 +  39895921 ctccctagtttccttct-cacagtcat-ttctctctca-aaattccttgaaaatgtagttgtttcctggaatatgcttctctgagaatctaga---
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2524693 93 +   3081153 ctcccca--tttcctttacgcaggtattttccttagca-aaaatcatagtgtatttaacccctttcttgtacctgcttttcggaggaGGCACTAGT
i dasNov3.JH578070          I 1957 C 0
e micMur3.chr31              23761623 652 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=51932.000000
s hg38.chr21_GL383579v2_alt    197606 9 +    201197 ctaaTGGTG
s panTro5.chr21               8808991 9 +  33445071 ctaaTGGTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348099 9 +  46275980 ctaaTGGTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332030 9 -  13858734 ctaaTGGTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346627 9 +  32716333 ctaataGTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772724 9 - 185818997 ctaataATG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413575 9 - 192294377 ctaataATG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5034279 9 -  30496662 ctaataATG
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047761 9 -  90373283 ctaataATG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568642 9 +   7543664 ctaataATG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577121 9 +  50472720 ctaataGTG
i calJac3.chr21             C 0 I 286
s micMur3.chr31              23762275 9 +  47401472 ctaataGTG
i micMur3.chr31             I 652 C 0
s otoGar3.GL873528           24944856 9 -  38779656 CTAATATTG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086290 1 +  39895921 c--------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2524786 9 +   3081153 CTAATAGCC
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=1532.000000
s hg38.chr21_GL383579v2_alt    197615 1 +    201197 G
s panTro5.chr21               8809000 1 +  33445071 C
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348108 1 +  46275980 C
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332039 1 -  13858734 C
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346636 1 +  32716333 C
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772733 1 - 185818997 C
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413584 1 - 192294377 C
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5034288 1 -  30496662 C
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047770 1 -  90373283 C
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568651 1 +   7543664 C
i manLeu1.NW_012103476v1    C 0 C 0
s micMur3.chr31              23762284 1 +  47401472 C
i micMur3.chr31             C 0 C 0
s otoGar3.GL873528           24944865 1 -  38779656 A
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2524795 1 +   3081153 T
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e cebCap1.NW_016107322v1     13990651 929 -  14377064 I
e canFam3.chr31              18086291 0 +  39895921 C
e aotNan1.NW_018487195v1      9213613 641 -   9889416 I
e calJac3.chr21              26577130 286 +  50472720 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=1561824.000000
s hg38.chr21_GL383579v2_alt    197616 184 +    201197 AGAATTATGTTTTTGTTTCTAAAGAAGATATACAATTTTGATGCAACTTCAATA--AAAAGAAAATATT---CTGAAAATTCTACTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGAGGGGTTATATCATGAAGGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
s panTro5.chr21               8809001 184 +  33445071 AGAATTATGTTTTTGTTTCTAAAGAAGATGTACAATTTTGATGCAACTTCAATA--AAAAGAAAATATT---CTGAAAATTCTACTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGAGGGGTTATAACATGAAGGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348109 184 +  46275980 AGAATTATGTTTTTGTTTCTAAAGAAGATGTACAATTTTGATGCAACTTCAATA--AAAAGAAAATATT---CTGAAAATTCTACTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGAGGGGTTATAACATGAAGGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332040 183 -  13858734 AGAATTATGTTTTTGTTTCTAAAGAAGATATACAATTTTGATGCAACTTCAAT---AAAAGAAAATATT---CTGAAAATTCTACTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGAGGGGTTATAACATGAAGGGATAGAAACCCTTTATGTCAAGAATATGAGTTCAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346637 178 +  32716333 AGAATTAAGTTTTTGTTTCTC---AAGATATACAATTTTGATGCCACTTCAATA--AAAAAAA---ATT---CTGAAAATTCTATTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGAGGGGTTATAACATGAAGGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772734 187 - 185818997 AGAATTATGTTTTTGTTTCTAAAGAAGATGTGCAATTTTGATGCAACTTCAATA--AAAAGAAAATATTCTCCTGAAAATTCAACTTCTGTGATATTACACAATGGAATTTC-TTTTTCTTCACAAACCT----ATCTTGGGGATTTATAACATGAAAGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413585 187 - 192294377 AGAATTATGTTTTTGTTTCTAAAGAAGATGTGCAATTTTGATGCAACTTCAATA--AAAATAAAATATTCTCCTGAAAATTCAACTTCTGTGATATTACACAATGGAATTTC-TTTTTCTTCACAAACCT----ATCTTGGGGATTTATAACATGAAAGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5034289 187 -  30496662 AGAATTATGTTTTTGTTTCTAAAGAAGATGTGCAATTTTGATGCAACTTCAATA--AAAAGAAAATATTCTCCTGAAAATTCAACTTCTGTGATATTACACAATGGAATTTC-TTTTTCTTCACAAACCT----ATCTTGGGGATTTATAACATGAAAGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047771 181 -  90373283 AGAATTATGTTTTTGTTTCTAAAGAAGATGTGCAATTTTGATGCAACTTCAATA--AAAAGAAAATATTCTCCTGAAAATTCAACTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGGGGG------ACATGAAAGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568652 187 +   7543664 AGAATTATGTTTTTGTTTCTAAAGAAGATGTGCAATTTTGATGCAACTTCAATA--AAAAGAAAATATTCTCCTGAAAATTCAACTTCTGTGATATTACACAATTGAATTTC-TTTTTCTTCACAAACCT----ATCTTGGGGGTTTATAACATGAAAGGAAAGAAACCCTTTATATCAAGAATATGAGTTCAA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577416 169 +  50472720 AGAATTACTTTTTTGTTTCTAAAGAAGATATAACATTTTGATGCAATTTCAATA--AAAAGAAAATATTCTCCTGAAAAGTCTACTTTTGTGATATTACACAATTGAATTTT-TTTTTCTTCACAAACCT----GCCTTGAGGATTTATAACATG------------------GTATCAGTAATATGAGTTCAA
i calJac3.chr21             I 286 C 0
s cebCap1.NW_016107322v1     13991580 169 -  14377064 AGAATTACTTTTTTGTTTCTAAAGAATATATAAAATTTTGATGCAACTTCAATA--AAAGGAAAATATTCTCCTGAAAATTCTACTTTTGTGATATTACACAATTGAATTTA-TTTTTCTTCACAAGCCT----ATCTTGAGTGTTTATAACGTG------------------GTATCAATAATATGAGTTCAA
i cebCap1.NW_016107322v1    I 929 C 0
s aotNan1.NW_018487195v1      9214254 173 -   9889416 AGAATTACTTTTTTGTTTCTAAAGAAGATATAAAATTTTGACGCAACTTCAATA--AAAAGAAAATATTCTCCTGAAAATTCTACTTTTGTGATATTGCACAATTGAATTTC-TTTTTCTTCACAAACCTATAAACCTTGAGGGTTTATAACATG------------------GTATCAATAATATGAGTTCAA
i aotNan1.NW_018487195v1    I 641 C 0
s micMur3.chr31              23762285 185 +  47401472 AGGATTATATTTTTGTTTCTAAAGAAAATATAAAACTTTGATGCAACTTCAATG--ATAAGAAAATATT---CTGAAAATTCTACTACTGTGACAGTACACAATTGGATTAATTTTTTCCTTACAAACCA----TTCTTGAGGGTTTGTAACATGAAAGAGAGGAAACCCTTTGTATCAGGAATATCAGTTCAA
i micMur3.chr31             C 0 I 1108
s otoGar3.GL873528           24944866 178 -  38779656 AGAATTATATCTTTGTTTCTGAAGAAGAGATAAAACTGTGATGAAACTCCAATG--ATAAGAAAATAGT---CTGAAAATTCTACCACTGTGATATTATGCAACTA-------TTTTTCTTCACAAGCCC----ATCTTGAGGGCTTATAATGTGGAAGAGAAGAAATCCTCTATATCAGGAATATCAATTCAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086291 170 +  39895921 -------tGTCTTT-------AAGAGGATATG--ACTCTGATACGACTCCAATC--ATAAGAATATATTTCCCTG-GACTTCTACTTATGCAATATCATAGAATTGGTTTGA-TTTCCCTTCACAAACCT----GTCCAGAGGGTTTATAAAAAGAAAGAGAGGAAATCTTTTATATTCGGAATATCAGTTATA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2524796 185 +   3081153 AAGATTATATTTTCTATTTTAAAGGACATATGGAACTTTGTTGTAACTCCAATGTTAAAAGACTATATTTTCCTGGAAAATCTGCTAATGTGATATCTCAGAA----ATTTA-TTTTCCCTTACAAAGCT----GTCTTGAGGGTTTATGGCATAGAAAAGAAGAAAGTATTTATATCAGGAATATCAGTTCAG
i dasNov3.JH578070          C 0 C 0
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=974446.000000
s hg38.chr21_GL383579v2_alt    197800 144 +    201197 -GCTTTGCTGGGAGTTACTACGTTAAAATGCATTGGGCcacacacatatagctac------------acatatacacaca-cacaAGTTTTACCAGTAAGTGAAGTGAAAACTACTAATGAAATATTATGTTATAGATAAATAATATAAATTGGAACT
s panTro5.chr21               8809185 144 +  33445071 -GCTTTGCTGGGAGTTACTACGTTAAAATGCATTGGGCcacacacatatagctac------------acatatacacaca-cacaAGTTTTACCAGTAAATGAAGTGAAAACTACTAATGAAATATTATGTTATAGATAAATAATATAAATTGGAACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348293 143 +  46275980 -GCTTTGCTGGGAGTTACTACGTTAAAATGCATTGGGCcacacacatatagctac------------acatatacacaca-cacaAGTTTTACCAGTAAATGAAGTGAAAACTACTAATGAAATATTATG-TATAGATAAATAATATAAATTGGAACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332223 144 -  13858734 -GCTTTGCTGGGAGTTACTACGTTAAACTGCATTGGGCCACACATATATAGCTAC------------ACATATACACACA-CACAAGTTTTACCAGTAAGTGAAGTGAAAACTACTAATGAAATATTATGTTGTAGATAAATAATATAAATTGGAACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346815 139 +  32716333 -GCTTTGCGAGGAGTTACTACGTTAAAATGCATTGGGCcacacacatgtagctac------------acatacacacaca-cacacGTTTTACCAGTAAGTGAAGTGAAAACTACT-----AATATTATGTTGTAGATAAATGATATAAATTGGAACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160772921 144 - 185818997 -ACTTTGCTGGGAGTTACTATGTTAAAATGCATTGGGCcacacacatacagctac------------acatatacacaca-cacaAGTTTTACCAGGAAGTGAAGTGAAAACTACTAATGAAATACTATATTGTAGATAAACAATATAAATTGGAACt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167413772 144 - 192294377 -ACTTTGCTGGGAGTTACTATGTTAAAATGCATTGGGCcacacacatacagctac------------acatatacacaca-cacaAGTTTTACCAGGAAGTGAAGTGAAAACTACTAATGAAATACTATATTGTAGATAAACAATATAAATTGGAACt
i macFas5.chr3              C 0 I 462
s macNem1.NW_012015021v1      5034476 144 -  30496662 -ACTTTGCTGGGAGTTACTATGTTAAAATGCATTGGGCcacacacatacagctac------------acatatacacaca-cacaAGTTTTACCAGGAAGTGAAGTGAAAACTACTAATGAAATACTATATTGTAGATAAATAATATAAATTGGAACT
i macNem1.NW_012015021v1    C 0 C 0
s chlSab2.chr2               20047952 144 -  90373283 -ACTTTGCTGGGAGTTACTATGTTAAAATGCGTTGGTCcacacacatacagctac------------acatatacacaca-cacaAGTTTTACCAGGAAGTGAAGTGAAAACTACTAATGAAATACTATATTGTAGAGAAATAATATAAATTGGAACt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3568839 144 +   7543664 -ACGTTGCTGGGAGTTACTATGTTAAAATGCGTTGGGCcacacacatacagctac------------acatatacacaca-cacaAGTTTTACCAGGAAGTGAAGTGAAAACTACTAATGAAATACTATATTGTAGATAAATAATATAAATTGGAACT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577585 143 +  50472720 -ACTCTGCTTGGAGTTACTATATTAAAATGCATTGGGCCACACACA-ATAGATAC------------ACACACATACACTCCACAAGTTTTGCCAGTAAGTGAACTGAGAA-TACTAATAAAATACTACATTATAGATACTCAATATAAATTGGAACT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13991749 154 -  14377064 -ACATTGCTTGGAGTTACTTTATTAAAATGCATTGGGCcacacat--atagatacacacacatacatacacacatacacaccacaAGTTTTACCAGTAAGTGAACTGAGAA-TACTAATAAAATACTACATTATAGATACATAATATAAATTGGAATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9214427 156 -   9889416 -ACTTTGCTTGGAGTTACTGTATTAAAATGCATTGGGCcacacacatatagatacatacacatacacacacacatacacacCGCAAGTTCTACCAGCAAGTGAACTGAGAA-TACTAATAAAATACTACGTTATAGATACATAATATAAATTGGAACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24945044 127 -  38779656 -ACTTTACCTGGAATTGCCATCTTATAAA------------------ATAGATAAA-----------ATACACACACATA-AATAAATTGTACTGGTTAATAAAATGAGGATTATTAATAGACTATCTCATGGTAGGTAAATAATATAAATTGAAACT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086461 112 +  39895921 -AATGTCTGTGGGAATACCATCTTTAGATACATTGGG----------------------------------ATACACAAA-CACGTGTTTTACTGGTCAATGGAGTAAGGAGTACTAATGAAAT---------TAGTTCCA-AATTGGAATTGGAACT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2524981 155 +   3081153 ATTTTAGCTGATATTAGCTATCTTAAAATTCATTGAAATTCACACATATATATACGTAGATATAATGACACACACACACA-CACA--TTTTACCAGTCAGTAAAACCAAGACTATTAGTGAAATTTTCCATTGCAGATAATTAATGTGAATTAAAATT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=44655.000000
s hg38.chr21_GL383579v2_alt    197944 5 +    201197 TTATA
s panTro5.chr21               8809329 5 +  33445071 TTATA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348436 5 +  46275980 TTATA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332367 5 -  13858734 TTATA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346954 5 +  32716333 TTATA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160773065 5 - 185818997 ttata
i rheMac8.chr3              C 0 I 651
s macFas5.chr3              167414378 5 - 192294377 TTATA
i macFas5.chr3              I 462 C 0
s macNem1.NW_012015021v1      5034620 5 -  30496662 TTATA
i macNem1.NW_012015021v1    C 0 I 651
s chlSab2.chr2               20048096 5 -  90373283 ttata
i chlSab2.chr2              C 0 I 1025
s manLeu1.NW_012103476v1      3568983 5 +   7543664 TTATA
i manLeu1.NW_012103476v1    C 0 I 648
s calJac3.chr21              26577728 5 +  50472720 TTATA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13991903 5 -  14377064 TTATA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9214583 5 -   9889416 TTATA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24945171 5 -  38779656 TTACA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086573 5 +  39895921 TAATA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2525136 5 +   3081153 GTGTA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=467074.000000
s hg38.chr21_GL383579v2_alt    197949 101 +    201197 gttaaaatgagaaagaccttacaggttatatagaccaactttctcacttcacatctggcaaaatgaagaaccagagaactgaagagatctacttgagtaaa
s panTro5.chr21               8809334 101 +  33445071 gttaaaatgagaaagaccttacaggttatatagaccaactttctcacttcacatctgacaaaatgaagaaccagagaactgaagagatttacttgagtaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348441 101 +  46275980 gttaaaatgagaaagaccttacaggttatatagaccaactttctcacttcacatctgacaaaatgaagaaccagagaactgaagagatttacttgagtaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332372 101 -  13858734 gtcaaaatgagaaagaccttacaggttatatagaccaactttctcacttcacatctggcaaaatgaagaaccagagaactgaagagatttacttgagtaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9346959 101 +  32716333 gtcaaaatgagaaagaccttacaggttatatagaccaactttctcacttcacatctggcaaaatgaaaaaccagagaactgaagagatttacatgagtaaa
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167414383 101 - 192294377 gtcaaaatgagaaagaccttacaggttatataaaccaactttctcactttgcatctggcaaaatgaagaaccagagaactgaagagatttacttgagtaaa
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26577733 101 +  50472720 GTAAAAAtgagaaagaccttacagattatatagaacaactttctcccttcacatctggcaaaatgaagaaccagagaactgaagagatttacttgagtaaa
i calJac3.chr21             C 0 I 1
s cebCap1.NW_016107322v1     13991908 101 -  14377064 GTAAAAAtgagaaagaccttacaggttatatagaacaactttctcacttcacgtctggcaaaatgaagagccagagaactgaagagatttacttgagtaaa
i cebCap1.NW_016107322v1    C 0 I 1
s aotNan1.NW_018487195v1      9214588 101 -   9889416 GTAAAAAtgagaaagaccttacagattatatggaacaactgtctcacttcacatctggcaaaatgaagaaccagagaactgaaaagatttacttgagtaaa
i aotNan1.NW_018487195v1    C 0 I 139
s otoGar3.GL873528           24945176 101 -  38779656 ATTGAAATATGagagaccttagagattacgtagaccacttttctcatttcccatctgataaaacagagagccaaagaactgaagtggctAACAGGAATAAA
i otoGar3.GL873528          C 0 I 1
s canFam3.chr31              18086578  92 +  39895921 GTTGCAAtgacagagaactcagagatcatgtagactaactttttcatttcacatttgacaaaa---------aggaaactaaagaggtttacttgaataaa
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2525141 101 +   3081153 GTTgaaatgagagagactttagagatcatgaaaaggagcttattcatttcaaatctgacaaaatggagaatgaaagaactgaaggtatttacctgaataaa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e macNem1.NW_012015021v1      5034625 651 -  30496662 I
e rheMac8.chr3              160773070 651 - 185818997 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3568988 648 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=73647.000000
s hg38.chr21_GL383579v2_alt    198050 26 +    201197 -ccggttggtagttgcaaaAGtaaata
s panTro5.chr21               8809435 26 +  33445071 -ccggttggtagttgcaaaAGtaaata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348542 26 +  46275980 -ccggttggtagttgcaaaAGtaaata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332473 26 -  13858734 -ccggttggtagttgcaaaAGtaaata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347060 26 +  32716333 -ccagttggtagttgcaaaAGtaaata
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167414484 26 - 192294377 -ccggttggtagttgcaaaAGtaaata
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26577835 24 +  50472720 -cagcttggtagttgc--aAGtaaata
i calJac3.chr21             I 1 C 0
s cebCap1.NW_016107322v1     13992010 24 -  14377064 -cagcttggtaattgc--aAGtaaata
i cebCap1.NW_016107322v1    I 1 C 0
s otoGar3.GL873528           24945278 23 -  38779656 -TACTTTGGTAGTTGCAAAAGTAa---
i otoGar3.GL873528          I 1 I 7
s canFam3.chr31              18086671 26 +  39895921 -cagcttggtagttgcaaaaatagaaA
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2525242 20 +   3081153 atagctaggttgttgcagaa-------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e macNem1.NW_012015021v1      5034625 651 -  30496662 I
e rheMac8.chr3              160773070 651 - 185818997 I
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3568988 648 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=18949.000000
s hg38.chr21_GL383579v2_alt    198076 8 +    201197 taaatata
s panTro5.chr21               8809461 8 +  33445071 taaatata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348568 8 +  46275980 taaatata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332499 8 -  13858734 taaatata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347086 8 +  32716333 taaatata
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167414510 8 - 192294377 taaagata
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26577859 8 +  50472720 taaatata
i calJac3.chr21             C 0 I 8
s cebCap1.NW_016107322v1     13992034 8 -  14377064 taaatata
i cebCap1.NW_016107322v1    C 0 I 102
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525262 0 +   3081153 C
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e macNem1.NW_012015021v1      5034625 651 -  30496662 I
e rheMac8.chr3              160773070 651 - 185818997 I
e canFam3.chr31              18086697 0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24945301 7 -  38779656 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3568988 648 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=8321.000000
s hg38.chr21_GL383579v2_alt    198084 23 +    201197 ctatat------atatatatatatatata
s panTro5.chr21               8809469 17 +  33445071 ctatat------atatatatata------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348576 17 +  46275980 ctatat------atatatataaa------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332507 15 -  13858734 ctatat------acatatatt--------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347094 15 +  32716333 ctatat------atatatagt--------
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167414518 16 - 192294377 ctatat------atatatacac-------
i macFas5.chr3              C 0 C 0
s calJac3.chr21              26577875 21 +  50472720 atatattttatcatatatata--------
i calJac3.chr21             I 8 C 0
s otoGar3.GL873528           24945308 15 -  38779656 atatat------atatatata--------
i otoGar3.GL873528          I 7 C 0
s dasNov3.JH578070            2525262  3 +   3081153 ----------------ata----------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e macNem1.NW_012015021v1      5034625 651 -  30496662 I
e rheMac8.chr3              160773070 651 - 185818997 I
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e canFam3.chr31              18086697  0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3568988 648 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=19571.000000
s hg38.chr21_GL383579v2_alt    198107 24 +    201197 taaaatatatatagcatttatata
s panTro5.chr21               8809486 20 +  33445071 ----atatatatagcatttatata
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348593 20 +  46275980 ----atatatatagcatttctata
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332522 20 -  13858734 ----atatatatagtatttatata
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347109 20 +  32716333 ----gtatatatagtatttatata
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167414534 16 - 192294377 ----acacacaca----ctatata
i macFas5.chr3              C 0 C 0
s dasNov3.JH578070            2525265 24 +   3081153 gaaAATATAAattgaacctctaca
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e macNem1.NW_012015021v1      5034625 651 -  30496662 I
e rheMac8.chr3              160773070 651 - 185818997 I
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e canFam3.chr31              18086697  0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e calJac3.chr21              26577896  0 +  50472720 C
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24945323  0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3568988 648 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=-7816.000000
s hg38.chr21_GL383579v2_alt    198131 111 +    201197 taa----------------------------------------------------tatatatagtatttata-----------catattatatatagtatt-----------tatatatatatgtatacttgtata----------tataaa-tata----------------------------agtatatata--------------cgtatataagtgtatataaatata-agtat
s panTro5.chr21               8809506  91 +  33445071 tat----------------------------------------------------tatatatagtatttata------------------------------------------taagtatatgtatacttgtata----------tataaa-tata----------------------------agtatatata--------------tgtatataagtgtatataaatata-agtat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348613 113 +  46275980 tat----------------------------------------------------tatatatagtatttata-----------tataatatatatagtatt---------tatataagtatatgtatacttgtata----------tataaa-tata----------------------------agtatatata--------------cgtatataagtgtatataaatata-agtat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332542  70 -  13858734 tat-----------------------------------------------------------------------------------------------------------------aatatatgtatacttgtata----------tataaa-tata----------------------------agtatatata--------------cttatat--gtgtatataaatata-agtat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347129 237 +  32716333 taaatgtaagtatatatacttgtatatataaatataagtatgtatactatatataaatatatagtatatatagtgtaaacatatataatatatatagtgtaaatatatagcatatagctatatatatagctatatagcatatatagtgtaaa-tatatagcatatagcatatagtgtaactatacagcatatatagtgtaaatatatagcatatat-actatatataaatatatagtat
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167414550  27 - 192294377 tat----------------------------------------------------tatac--------------------------------------------------------------tatatac---tata----------tataaa-ta------------------------------------------------------------------------------------
i macFas5.chr3              C 0 C 0
s otoGar3.GL873528           24945323  35 -  38779656 --------------------------------------------------------------------------------------------------------------------------tacacacatatata----------tgtaaattata----------------------------tatgtatata--------------------------------------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525289   0 +   3081153 C
e cerAty1.NW_012002954v1     13546875 420 +  21915920 I
e macNem1.NW_012015021v1      5034625 651 -  30496662 I
e rheMac8.chr3              160773070 651 - 185818997 I
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e canFam3.chr31              18086697   0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e calJac3.chr21              26577896   0 +  50472720 C
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3568988 648 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=154630.000000
s hg38.chr21_GL383579v2_alt    198242 53 +    201197 atac--tatatataagtatatagtatatatagtgtaaatatatagcatatataaa
s panTro5.chr21               8809597 53 +  33445071 gtac--tatatataagtatatagtatatatagtgtaaatatatagcatatataaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348726 53 +  46275980 gtac--tatatataagtatatagtatatatagtgtaaatatatagcatatataaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332612 55 -  13858734 atactatatatataagtatatagtatatatattgtaaatatatagcatatataaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347366 53 +  32716333 atat--agtgtaaatatatatagtatatatagtgtaaatatatagcatatatata
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160773721 53 - 185818997 atac--tatatatgaatatatagcatgtatagtataaatatatagtgtttatata
i rheMac8.chr3              I 651 I 3
s macFas5.chr3              167414577 50 - 192294377 ---c--tatatatgaatatatagcatgtatagtataaatatatagtgtttatata
i macFas5.chr3              C 0 I 3
s macNem1.NW_012015021v1      5035276 53 -  30496662 atac--tatatatgaatatatagcatgtatagtataaatatatagtgtttatata
i macNem1.NW_012015021v1    I 651 I 3
s cerAty1.NW_012002954v1     13547295 53 +  21915920 atac--tatatatgaatatatagcatgtatagtataaatatatagtgtttatata
i cerAty1.NW_012002954v1    I 420 I 3
s manLeu1.NW_012103476v1      3569636 53 +   7543664 atac--tatatatgaatatatagcatgtatagtataaatatatagtgtttatata
i manLeu1.NW_012103476v1    I 648 I 3
s otoGar3.GL873528           24945358 13 -  38779656 ----------------tatataATTTATA--------------------------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525289  0 +   3081153 C
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e canFam3.chr31              18086697  0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e calJac3.chr21              26577896  0 +  50472720 C
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=1000.000000
s hg38.chr21_GL383579v2_alt    198295 1 +    201197 c
s panTro5.chr21               8809650 1 +  33445071 c
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348779 1 +  46275980 c
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332667 1 -  13858734 c
i gorGor5.CYUI01015003v1    C 0 I 2
s nomLeu3.chr25               9347419 1 +  32716333 c
i nomLeu3.chr25             C 0 I 4
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525289 0 +   3081153 C
e cerAty1.NW_012002954v1     13547348 3 +  21915920 I
e macNem1.NW_012015021v1      5035329 3 -  30496662 I
e macFas5.chr3              167414627 3 - 192294377 I
e rheMac8.chr3              160773774 3 - 185818997 I
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e canFam3.chr31              18086697 0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e calJac3.chr21              26577896 0 +  50472720 C
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24945371 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3569689 3 +   7543664 I
e chlSab2.chr2               20048101 1025 -  90373283 I

a score=6006.000000
s hg38.chr21_GL383579v2_alt    198296 1 +    201197 t
s panTro5.chr21               8809651 1 +  33445071 t
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348780 1 +  46275980 t
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332670 1 -  13858734 t
i gorGor5.CYUI01015003v1    I 2 C 0
s nomLeu3.chr25               9347424 1 +  32716333 t
i nomLeu3.chr25             I 4 C 0
s rheMac8.chr3              160773777 1 - 185818997 t
i rheMac8.chr3              I 3 C 0
s macFas5.chr3              167414630 1 - 192294377 t
i macFas5.chr3              I 3 C 0
s macNem1.NW_012015021v1      5035332 1 -  30496662 t
i macNem1.NW_012015021v1    I 3 C 0
s cerAty1.NW_012002954v1     13547351 1 +  21915920 t
i cerAty1.NW_012002954v1    I 3 C 0
s chlSab2.chr2               20049126 1 -  90373283 t
i chlSab2.chr2              I 1025 C 0
s manLeu1.NW_012103476v1      3569692 1 +   7543664 t
i manLeu1.NW_012103476v1    I 3 C 0
s calJac3.chr21              26577896 1 +  50472720 t
i calJac3.chr21             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525289 0 +   3081153 C
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e canFam3.chr31              18086697 0 +  39895921 C
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e saiBol1.JH378168            8732566 0 +  13128814 C
e otoGar3.GL873528           24945371 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=227605.000000
s hg38.chr21_GL383579v2_alt    198297 44 +    201197 atatatatataAAGAGAGAAACGTT------TAAATTTTTCTCATTAAAA
s panTro5.chr21               8809652 44 +  33445071 atatatatataAAGAGAGAAACGTT------TAAACCTTTCTCATTAAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348781 44 +  46275980 atatatatataAAGAGAGAAACGTT------TAAACCTTTCTCATTAAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332671 44 -  13858734 atatatatataAAGAGAGAAACGTT------TAAACCTTTCTCATTAAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347425 44 +  32716333 atatatatataCAGAGAGAAATGTT------TAAACCTTTCTCATTAAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160773778 44 - 185818997 atgtatatataAAGAGAGAAAGGTT------TAAACTTTTCTTATTAAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167414631 44 - 192294377 atgtatatataAAGAGAGAAAGGTT------TAAACTTTTCTTATTAAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5035333 44 -  30496662 atgtatatataAAGAGAGAAAGGTT------TAAACTTTTCTTATTAAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13547352 44 +  21915920 atatatatataAAGAGAGAAAGGTT------TAAACTTTTCTTATTAAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049127 44 -  90373283 atatatatataAAGAGAGAAAGGTT------TAAACTTTTCTTATTAAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3569693 44 +   7543664 atatatatataAAGAGAGAAAGGTT------TAAACTTTTCTTATTAAAA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577897 50 +  50472720 ataagtatatataGAGAGAAAGGTTAATATATAAACCTTTCTTATTAAAa
i calJac3.chr21             C 0 C 0
s canFam3.chr31              18086697 22 +  39895921 ACATATATATTGAGG----------------------------ATCTAAA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525289  0 +   3081153 C
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e otoGar3.GL873528           24945371  0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=124154.000000
s hg38.chr21_GL383579v2_alt    198341 18 +    201197 Atgtataaggcaccccag
s panTro5.chr21               8809696 18 +  33445071 Atgtataaggcaccccag
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348825 18 +  46275980 Atgtataaggcaccccag
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332715 18 -  13858734 Atgtataaggcaccccaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347469 18 +  32716333 ATGTATAAGGCACCCCAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160773822 18 - 185818997 Atgtataaggcaccccga
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167414675 18 - 192294377 ATGTATAAGGCACCCCGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5035377 18 -  30496662 Atgtataaggcaccctga
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13547396 18 +  21915920 Atgtataaggcaccccgg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049171 18 -  90373283 ATGTATAAGGCACCCCAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3569737 18 +   7543664 Atgtataaggcaccccgg
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577947 18 +  50472720 ctgtgtaaggcactataa
i calJac3.chr21             C 0 C 0
s otoGar3.GL873528           24945371 14 -  38779656 ----ATAAATcaccctaa
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086719 18 +  39895921 ACATATAAGACACTCTAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2525289 18 +   3081153 gtgtatcaggtactttaa
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cebCap1.NW_016107322v1     13992042 102 -  14377064 I
e aotNan1.NW_018487195v1      9214689 139 -   9889416 I
e saiBol1.JH378168            8732566  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=2486331.000000
s hg38.chr21_GL383579v2_alt    198359 300 +    201197 tagttactcacatgaaagttattacaattaaacctcaaagcatccctataag-------------aaag--------actttaatatcattgcatccacttaattatctgggaaatatttctcaaagttatttagg-taacttgccttgggtcccacattacgaaatgccagagTGACGTTAATTCACATTTCATAAGCTAAATC-TTAAGTGAAGTTTTTATTTGATGGTCTAGAGT----TCTAGGAGCCTCA-TTT--GAC---ATT----------------------AAAAAAAGAA--GTCTTTAAAATTCTCCTGTAAAATATACAGCCATTTTC--TGTCAATTTATTTCA
s panTro5.chr21               8809714 300 +  33445071 tagttactcacatgaaagttattacaattaaacctcaaagcatccctataag-------------aaag--------actttaatatcattgcatccacttaattatctgggaaatatttctcaaagttatttagg-taacttgccttgggtcccacattacgaaatgccagagTGATGTTAATTCACATTTCATAAGCTAAATC-TTAAGTGAAGTTTTTATTTGATGGTCTAGAGT----TCTAGGAGCCTCA-TTT--GAC---ATT----------------------AAAAAAAGTA--GTCTTTAAAATTCTCCTGTAAAATATACAGCCATTTTC--TGTCAATTTATTTCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22348843 300 +  46275980 tagttactcacatgaaagttattacaattaaacctcaaagcatccctataag-------------aaag--------actttaatatcattgcatccacttaattatctgggaaatatttctcaaagttatttagg-taacttgccttgggtcccacattacgaaatgccagagTGACGTTAATTCACATTTCATAAGCTAAATC-TTAAGTGAAGTTTTTATTTGATGGTCTAGAGT----TCTAGGAGCCTCA-TTT--GAC---ATT----------------------AAAAAAAGTA--GTGTTTAAAATTCTCCTGTAAAATATACAGCCATTTTC--TGTCAATTTATTTCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8332733 301 -  13858734 tagttactcacatgaaaattattacaattaaacctcaaagcatccctataag-------------aaag--------actttaatatcattgcatctgcttaattatctgggaaatatttctcaaagttatttaga-taacttgccttgggtcccacattacgaaatgccagagTGACGTTAATTCACATTTCATAAGCTAAATC-TTAAGTGAAGTTTTTATTTGATGGTCTAGAGT----TCTAAGAGCCTCA-TTT--GAC---ATTA---------------------AAAAAAAAAA--GTCTTTAAAATTCTCCTGTAAAATATACAGCCATTTTC--TGTCAATTTATTTCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347487 305 +  32716333 TAGTTACTCATATGAAAattattacaattaaacctcaaagcatccctttaag-------------aaag--------actttaatatcattgcatccacttaattatctgggaaatatttcttaaagttatttagg-taacttgccttgggtcccacattacaaaatgccagagTGACGTTAATTCACATTTCATAAACTAAATCTTTAAGTGAAGTTTTTATTTGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TTT--GAC---ATT----------------------TTAAAAAAAA--GTCTTTAAAATTCTCCTGTAAAATATACAGCCATTTTC--TCTCAATTTATTTCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160773840 309 - 185818997 tagctatttacatgaaaattattgcaattaaacctcaaagaatccccataag-------------aaag--------actttaatatcattgcatccacttaattatctggaaaatatttctcaaaattatttaggttaacttgccttgggtcccacattaagaaatgccagaTTGATGTTAATTCACATTTCATAAGCTAAATC-GTAAATGACGTTTTTATTCGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TTT--GAC---ATTT--------------------AAAAAAAAATAATGTCTTTAAAATTCTCCTGTAAAATATACAGCCCTTTTC--TGTCAATTTATTTCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167414693 309 - 192294377 TAGCTATTTACATGAAAATTATTGCAATTAAACCTCAAAGAATCCCCATAAG-------------AAAG--------ACTTTAATATCATTGCATCCACTTAATTATCTGGAAAATATTTCTCAAAATTATTTAGGTTAACTTGCCTTGGGTCCCACATTAAGAAATGCCAGATTGATGTTAATTCACATTTCATAAGCTAAATC-GTAAATGACGTTTTTATTCGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TTT--GAC---ATTT--------------------AAAAAAAAATAATGTCTTTAAAATTCTCCTGTAAAATATACAGCCCTTTTC--TGTCAATTTATTTCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5035395 309 -  30496662 tagctatttacatgaaaattattgcaattaaacctcaaagaatccccataag-------------aaag--------actttaatatcattgcatccacttaattatctggaaaatatttctcaaagttatttaggttaacttgccttgggtcccacattaagaaatgccagaTTGATGTTAATTCACATTTCATAAGCTAAATC-GTAAATGACGTTTTTATTCGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TTT--GAC---ATTA--------------------AAAAAAAAATAATGTCTTTAAAATTCTCCTGTAAAATATACAGCCCTTTTC--TGTCAATTTATTTCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13547414 308 +  21915920 tagctatttacatgaaaattattgcaattaaacttcaaagaatccccataag-------------aaag--------actttaatatcattgcatccacttaattatctggaaaatatttctcaaagttatttaggttaacttgccttgggtcccacattaagaaatgccagaCTGATGTTAATTCACATTTCATAAGCTAAATC-GTAAACGACGTTTTTATTTGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TTT--GAC---ATTT---------------------AAAAAAAATAATGTCTTTAAAATTCTCCTGTAAAATATACAGCCCTTCTC--TGTCAATTTATTTCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049189 308 -  90373283 TAGCTATTTACATGAAAATTATTGCAATTAAACCTCAAAGCATCCCCATAAG-------------AAAG--------ACTTTAATATCATTGCATTCACTTAATTATCTGGGAAATATTTCTTAAAGTTATTTAGGTTAACTTGCCTTGGGTCCCACATTAAGAAATGCCAGATTGATGTTAATTCACATTTCATAAGCTAAATC-TTAAATGACGTTTTTATTTGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TCT--GAC---ATTT---------------------AAAAAACATAATGTCTTTAAAATTCTCCTGTAAAATATACAGCCCTTTTC--TGTCAATTTATTTCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3569755 308 +   7543664 tagctatttacatgaaaattattgcaattaaacttcaaagaatccccataag-------------aaag--------actttaatatcattgcatccacttaattatctggaaaatatttctcaaagttatttaggttaacttgccttgggtcccacattaagaaatgccagaCTGATGTTAATTCACATTTCATAAGCTAAATC-GTAAATGACGTTTTTATTTGATGGTCTAGAGTTCTCTCTAAGAGCCTCA-TTT--GAC---ATTT---------------------AAAAAAAATAATGTCTTTAAAATTCTCCTGTAAAATATACAGCCCTTTTC--TGTCAATTTATTTCA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26577965 316 +  50472720 tagttacttacatgaaaattattacaattaaacctcaaagcattctcctaggtctttatccccTTAACA--------ACTTCCATATCATTACATCCGCTTAACTATCTGGCAAATATTTCTCAAAGTTCTttaag-taacttgccttaggt-ccacattaggaaatgccagaTTGACATTAATTCACATTTCATAAGCTAAATC-TTAAATGAAG-TTTTATTTGATGGCCTAGAGTTTGCTTTAAGGGCCTCATTTT--GAC---ATTT--------------------TAAAAAAAG----TTCTTTAAAATTCTCCTGTAAAGTATGTTGCCGTTTTC--TGTCAATTTATTTTA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13992144 316 -  14377064 TAGTTACTTACATGAAAATTATTACAATTAAACCTCAAAGCATCCCCCTAAGTCTTTGTCCCCATAAAG--------ACTTCTATATCATTACATCTGCTTAACTATCTGGCAAATATTTCTCAAAGTTATttaag-taacttgccttaggt-ccacattaggaaatgccagaTTCACATTAATTCACATTTGATAAGCTAAATC-TTAAATGAAG-TTTTATTTGATCGTCTCGAGTTCACTTTAAGAGCCTCATTTT--GAC---ATTT--------------------TTTAAAAAG----TTCTTTAAAATTCTCCTGTAAAGTATGTTGCCGTTTTC--TGTCAATTTATTTCA
i cebCap1.NW_016107322v1    I 102 C 0
s aotNan1.NW_018487195v1      9214828 316 -   9889416 TAGTTACTTACATGAAAATTATTACAATTAAACCTCAAAGCATCCCCCTAAGTCTTTATCTCCATAAAG--------ACATCTATATCATTACATCCGCTTAACTATCTGGCAAATGTTTCTCAAAGTTATttaag-taacttgccttaggt-ccacattaggaaatgccagaTTGACATTAATTCACATTTCATAAGCTAAATC-TTAAATGAAG-TTTTATTTGATGGTCTAGAGTTCACTTTAAGAGCCTCATTTT--GAC---ATTT--------------------TAAAAAAAG----TTCTTTGAAATTCTCCTGTAAAGTATGTTACCGTTTTC--TGTCCATTTATTTCA
i aotNan1.NW_018487195v1    I 139 C 0
s otoGar3.GL873528           24945385 314 -  38779656 taggtacttacatgataattataacatttaaacctcaaaacatccccataag-------------gaagactttaatactttaatatcattgcacttgcttaattttctggaaaatatttctcaaagttattaaag-taacttgccttgagtcttacattcagagatggcagatccaggTTAATTCACATTTTACAAGCTATGGC-TT----GAAGTCTTTTCCTGATGGTCTAGAATGTTCCCTAAGATCCTCA-TTT--TAC---TTTT--------------------TTAAAAAATAATTCTCTTAAAAATCCACACAGCAAATATAGTGTCATTTTTTATGTCAATTTATTCCA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18086737 275 +  39895921 ----TATGCAC-TAAACTTTATAATATTTAAGCCTCAAAGCATCCTCATAAG-------------GAAG--------ATAT--ATATCATTGAGCCC----------------------------------TTAAG-TAACTTGTCTTGAGTC-----TTAGGAAGTATCAGATTC-TGGTAGTTCACATTTCATAACCTAAGGC-ATAAAC--AGTCTTTGCCTGATGGTCTTGCCTCCTCTCTAAGAGCTTCG-TTTAAAAC---AtttttttctttttttttttttttttGATAATG----CTCTTAAAAATCCTCACATCAAATGTACAGCCATTTTC--CATCA--CTATTTGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2525307 276 +   3081153 taggcatgtatgtgaacattataa------------aaagttatcccataag-------------aaag--------acatcaatattgttacatctacttacatattaagaagatatttctcaaagttatttaaa-tgacttgccttggctcctacattaaaaagagcctgatccagattaattcacattttacaagctaagtc-ttgtactGATCCTTTGCCT---------------TCTCTCTGAGTTTCA-CTT--GACTATATTT--------------------CTTTAAATG----TTTTTTATAATCCTTGCATCAAAAA----GTCATTTTA--CATCATTTTATTTCA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e saiBol1.JH378168            8732566   0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=1678668.000000
s hg38.chr21_GL383579v2_alt    198659 183 +    201197 CTGGTAGTATCAGTTTTCATTTAAATATATGTACAA---------------ATACATTAAAA----------TTTTTCATAAAATAAATATTGCATCCCTTCTTTGCAGAACTTGTTCGTGGTATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGCATGTTTAGGTGGAAGCATGCAG-AAAATTATTAGAAAAT
s panTro5.chr21               8810014 183 +  33445071 CTGGTAGTATCAGTTTTCATTTAAATATATGTACAA---------------ATACATTAAAA----------TTTTTCATAAAATAAATATTGCATCCCTTCTTTGCAGAACTTGTTCGTGGTATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCCTTGGCATGTTTAGGTGGAAGCATGCAG-AAAATTATTAGAAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349143 183 +  46275980 CTGGTAGTATCAGTTTTCATTTAAATATATGTACAA---------------ATACATTAAAA----------TTTTTCATAAAATAAATATTGCATCCCTTCTTTGCAGAACTTGTTCGTGGTATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCCTTGGCATGTTTAGGTGGAAGCATGCAG-AAAATTATTTGAAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333034 183 -  13858734 CTGGTAGTATCAGTTTTCATTTAAATATATGTACAA---------------ATACATTAAAA----------TTTTTCATAAAATAAATATTGCATCCCTTCTTTGTGGAACTTGTTCATGGTATCCTATATGTCAAGAGCATGTTTATTTGGCAGCAAACTGCTTTGGCATGTTTAGGTGGAAGCATGCAG-AAAATTATTAGAAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347792 183 +  32716333 CTGGTAGTATCATTTTTCATTTAAATATATGTACAA---------------ATATATTGAAA----------TTTTTCAGAAAATAAATATTGCATCTCTTCTTTGCAGAACTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGCATGTTTAGGTGGAAGCATGCAG-AAAATCATTATAAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774149 183 - 185818997 CTGATAGTATCAGTTTTCACGTAAATATATGTAAAA---------------ATATATTAAAA----------TATTTCATAAAATAAATATTGCATCCCTTCTTTTCAGAGCTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGTGTGTTTAGGTGGAAGCATGCAG-AAAATGATTATAAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415002 183 - 192294377 CTGATAGTATCAGTTTTCACGTAAATATATGTAAAA---------------ATATATGAAAA----------TATTTCATAAAATAAATATTGCATCCCTTCTTTTCAGAGCTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGTGTGTTTAGGTGGAAGCATGCAG-AAAATGATTATAAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5035704 183 -  30496662 CTGATAGTATCAGTTTTCACATAAATATATGTAAAA---------------ATATATTAAAA----------TATTTCATAAAATAAATATTGCATCCCTTCTTTTCAGAGCTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGTGTGTTTAGGTGGAAGCATGCAG-AAAATGATTATAAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13547722 183 +  21915920 CTGATAGTATCAGTTTTCACGTAAATATATGTAAAA---------------ATATATTAAAA----------TATTTCATAAAATAAATATTGCATCCCTTCTTTTCAGAGCTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGTGTGTTTAGGTAGAAGCATGCAG-AAAATGATTATAAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049497 183 -  90373283 CTGGTAGTATCAGTTTTCACGTAAATATATGTAAAA---------------ATATATTAAAA----------TTTTTCATAAAATAAATATTGCATCCCTTTTTTGCAGAGCTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGCATGTTTAGGTGGAAGCATACAG-AAAATGATTATAAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570063 183 +   7543664 CTGATAGTATCAGTTTTCACGTAAATATATGTAAAA---------------ATATATTAAAA----------TATTTCATAAAATAAATATTGCATCCCTTCTTTTCAGAGCTTGTCCATGATATCCTATATGTCAACAGCATGTTTATTTGGCAGCAAACTGCTTTGGTGTGTTTAGGTAGAAGCATGCAG-AAAATGATTATAAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578281 172 +  50472720 CTGATACTATCAGTTTTCatttaaatatatgtaaaa---------------at---------------------tttaataaaataaatatCACATTCCTCCTTTGCAGAACTTACCCATCATATCCTGTATGTCAACAGCATGTTTATTTGGCAGCAGCCTTCTTTGACTGGCTTAGGTGAAAGCATGCTG-AAAATGATTATAAAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732566 168 +  13128814 ctGCTACTGTCAGTTTTCatttaaatatatgtaaaa---------------ct---------------------tttaataaaataaatattaCATTCCTCCTTTGCAGAACTTGTTCATGATATCCTGTATGTCAACAGCATGTTTATTTGGCAGCAACTTTCT----CTGGCTTAGGTGAAAGCATGCTG-AAAATGATTATAAAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992460 172 -  14377064 CTGCTACTACCAGTTTTCATTTAAATATATGTAAAA---------------AT---------------------TTTAATAAAATAAATATTATATTCCTCCTTTGCAGAATTTGTTTAAGATATCCTGTATGTCAGCAGCATGTTTATTAGGCAGCAACCTTCTTTGGCTTGTTTAGGTGAAAGCATGCTG-AAAATGATAATAAAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215144 172 -   9889416 CTGCTACTATCAGTTTTCATTTACATATATGTAAAA---------------AT---------------------TTTAATAAAATAAATATTACATTCCTCCTTTGCAGAACTTGTTTATGATATCCTGTATGTCAACAGCATGTTTATTTGGCAGCAACCTTCTTTGGCTTGTTTAGGTGAAATCATGCTG-AAAATGATTATAAAAT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24945699 203 -  38779656 CTGGTGGTATCATTTTTCatttaaatatatacaaaattttttcatttaaatatatacaaaaatataCAACATTTTTTCACTAAATAAG-ATCATGTTCCTCTTTTATAGAACTTGCTCATGATTTTCTCTGTGTCAACAACGTATTTA----GCAGAAAGCTCCTTTGACAAGTTTAAATGGAAGT-TGTAGTAGAATGATTAAAAAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087012 157 +  39895921 CTGATAGTATCAACTTTCATTTAAATATATGTGGAA---------------ATACAGGT-------------TGGTCCATCAAATA------GTGTTCCTTTATTGCTGAAGTT---------------TACTACAACAACATGTTTATTAAGCAGCAAGCTCCTCTGTCATGTGTAAGTGAAAG--TGCAT-AAAATGATTACAAAAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2525583 178 +   3081153 GTAATAGTATTGATTTGCATTTAAATAGAT--AGAA---------------ATATATGAG------------TTTTCCATGAAA-AAATCACATTTTCATCCATTGCAAATCTTGACCATGATATTCTTTTTATCAACAACATGTTTCTTAAGCAGCAAGTTCCTGTGTTATGTTTACATGAAAGCATGCaa-gaaatgattggggcat
i dasNov3.JH578070          C 0 I 453
e micMur3.chr31              23762470 1108 +  47401472 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=670206.000000
s hg38.chr21_GL383579v2_alt    198842 75 +    201197 AAAGT-TCTATTTATCTTGTATTCTTGGAAACTCTTTAAATATGCAGATAACATATGAATACTCTAGATATCTCTT
s panTro5.chr21               8810197 75 +  33445071 AAAGT-TCTATTTATCTTGTATTCTTGGAAACTCTTTAAATATGCAGATAACATATGAATACTCTAGGTGTCTCTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349326 75 +  46275980 AAAGT-TCTATTTATCTTGTATTCTTGGAAACTCTTTAAATATGCAGATAACATATGAATACTCTAGGTGTCTCTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333217 75 -  13858734 AAAGT-TCTATTTATCTTGTATTCTTGGAAACTCTTTAAATATGCAGATAACATATGAATACTCTAGATATCTCTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9347975 75 +  32716333 AAACT-TCTATTTATCTTGTATTCTTGGAAACTCTTTAAATATGCAGATAACATACGAATACTCTAGATAGCTCTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774332 71 - 185818997 AATGT-TCTATTTATCTTGTATTCTTGGAAACTCTT----TATGCAGATAACATATGAATTCTCTAGATATCTCTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415185 71 - 192294377 AATGT-TCTATTTATCTTGTATTCTTGGAAACTCTT----TATGCAGATAACATATGAATTCTCTAGATATCTCTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5035887 71 -  30496662 AATGT-TCTATTTATCTTGTATTCTTGGAAACTCTT----TATGCAGATAACATATGAATTCTCTAGATATCTCTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13547905 71 +  21915920 AATGT-TCTATTTATCTTGTATTCTTGGAAACTCTT----TATGCAGATAACATATGAATTCTCTAGATGTCTCTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049680 71 -  90373283 AATGT-TCTATTTATCTTGTATTCTTGGAAACTCTT----TATGCAGATAACATATGAATTCTCTAGATATCTCTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570246 71 +   7543664 AATGT-TCTATTTATCTTGTATTCTTGGAAACTCTT----TATGCAGATAACATATGAATTCTCTAGATATCTCTT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578453 75 +  50472720 AACGT-TCGGTTTATCTTATAATCTTGGGAACTCTTTAAATACGCAGCTAACATATAAACACTCTAGATATTCCTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732734 75 +  13128814 AATGT-TCTATGTATCTTATACTCTTGGGAGCTCTTTAAATATGCAGCTAACATATAAATACTCTAGATATCCCTT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992632 75 -  14377064 AATGT-TCTATGTATCTTATATTCTTGGGAACTCTTTAAATATGCAGCTAACATATAAATACTCTAGATATCCCTT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215316 75 -   9889416 AATGT-TCTATGTATCTTATATTCTTGGGAACTCTTTAAATCTGCAGCTAACACATAAATACTCTAGATATCCCTT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24945902 74 -  38779656 AGATTGCCTACTTACCTTATAGACTTGGAAG--CTTAAAATATACAAACTACATACTAATTCTTTAGATATCCTTT
i otoGar3.GL873528          C 0 I 118
s canFam3.chr31              18087169 75 +  39895921 AATGA-CTTATTTATCTTACATTCTTGGAATCTCTTGAAATATACAGACAATATACTAATTCTTAAAATATCAATG
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=922768.000000
s hg38.chr21_GL383579v2_alt    198917 105 +    201197 TGCCTATATAAAATTTAACTTGTGTTATAACATTTTCATTTTGAAAAGGTGTTCATGTGACCCACGGCATTTCT------AGAACTTTATGACATAAAACTTATTGCTTTA
s panTro5.chr21               8810272 105 +  33445071 TGCTTATATAAAATTTACCTTGTGTTATAACATTTTCATTTTGAAAAGGTGTTCATGTGACCCAAGGCATTTCT------AGAACTTTATGACATAAAACTTATTGCTTTA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349401 105 +  46275980 TGCTTATATAAAATTTAACTTGTGTTATAACATTTTCATTTTGAAAAGGTGTTCATGTGACCCAAGGCATTTCT------AGAACTTTATGACATAAAACTTATTGCTTTA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333292 105 -  13858734 TGCTTATATAAAATTTAATTTGTGTTATAACATTTTCATTTTGAAAAGGTGTTCATGTGACCCACGGCATTTCT------AGAACTTTATGATATAAAACTAATTGCTTTA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348050 105 +  32716333 TGCTTATATAAAATTTAATTTGTGTTATAAAGTTTTCATTTTGAAAAGGTGTTAATTTGGCCTACAGCATTTCT------AGAACTTTATGACATAAAACTTACTGCTTTA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774403 105 - 185818997 TTCTTATATAAAATTTAATTTGTGTTATAACATTTTCATTTGGAAAAGGTGTTCATGTGGCCCACAGCATTTCT------AGAATTTTATGGCATAAAACTTATTGCTTTA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415256 105 - 192294377 TTCTTATATAAAATTTAATTTGTGTTATAACATTTTCATTTGGAAAAGGTGTTCATGTGGCCCACAGCATTTCT------AGAATTTTATGGCATAAAACTTATTGCTTTA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5035958 105 -  30496662 TTCTTATATAAAATTTAATTTGTGTTATAACATTTTCATTTGGAAAAGGTGTTCATGTGGCCCACAGCATTTCT------AGAATTTTATGGCATAAAACTTATTGCTTTA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13547976 105 +  21915920 TTCTTATATAAAATTTAATTTGTGTTATAACATTTTCATTTGGAAAAGGTGTTCATGTGGCCCACAGCATTTCT------AGAATTTTATGGCATAAAACTTATTGCTTTA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049751 105 -  90373283 TGCTTATATAAAATTTAATTTGTGTTATAAAATTTTCATTTGGAAAAGTTGTTCGTGTGGCCCACAGCATTTCT------AGAATTTTATGGCATAAAACTTATTGCTTTA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570317 105 +   7543664 TTCTTATATAAAATTTAATTTGTGTTATAACATTTTCATTTGGAAAAGGTGTTCATGTGGCCCACAGCATTTCT------AGAATTTTATGGCATAAAACTTATTGCTTTA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578528 105 +  50472720 TGCATGTATAAAGTTTCATTTGTGTTATGAAATTTCCATTTTGAAAAAGTGTTCATGTGGCCCGCAGCATTACT------CGGACTTTGTAACATAAAGCTTACTGCTTTA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732809 105 +  13128814 TGTATGTATAAAGTTTCATTTGTGTTATAAAATTTCCATTTTAAAAAAGTGTTCATGTGGCCCACAGCATTACT------AGGACTTTGCAATACAAAACGTATTGCTTTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992707 105 -  14377064 TGCATGTATAAAGTTTCATTTGTGTTATAAAATTTCCATTTTGAAAAAGTGTTCATGTGGCCCACAGCATTACT------AGGACTTTGTAACACAAAACTTATCGCTTTA
i cebCap1.NW_016107322v1    C 0 I 6
s aotNan1.NW_018487195v1      9215391 105 -   9889416 TGCATGAATAAAGTTTCATTTGTGTTATAAAATTTCCATTTTGAAAAAGTATTCATGTGGCCCACAGCATTACT------AGGACTTTGTAACACAAAACTTACTGCTTTA
i aotNan1.NW_018487195v1    C 0 I 6
s otoGar3.GL873528           24946094 111 -  38779656 TGCTTGTATAAAGTTCTATTTGTGTTATGAAGCTTCTATTTTGAAGAAATGTTAGTATGGCCCATGGCATTACTACTAACAGAATTTTTTGAGGTAAATCTTACTGTTTTA
i otoGar3.GL873528          I 118 C 0
s canFam3.chr31              18087244  64 +  39895921 TGTTTGTATAG---------------GTAAAAGT--CATTT------------------------AGCATTACT------ATAACTCAGTAAGATAATATCTATTTTTTTA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=30430.000000
s hg38.chr21_GL383579v2_alt    199022 6 +    201197 CAATTG
s panTro5.chr21               8810377 6 +  33445071 CAATTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349506 6 +  46275980 CAATTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333397 6 -  13858734 AAATTG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348155 6 +  32716333 AAATTG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774508 6 - 185818997 AAACTG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415361 6 - 192294377 AAACTG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036063 6 -  30496662 AAACTG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548081 6 +  21915920 AAACTG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049856 6 -  90373283 AAACTG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570422 6 +   7543664 AAACTG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578633 6 +  50472720 ATACTG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732914 6 +  13128814 ATACTG
i saiBol1.JH378168          C 0 C 0
s otoGar3.GL873528           24946205 6 -  38779656 AAAAGG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087308 5 +  39895921 -AATGG
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e cebCap1.NW_016107322v1     13992812 6 -  14377064 I
e aotNan1.NW_018487195v1      9215496 6 -   9889416 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=6315.000000
s hg38.chr21_GL383579v2_alt    199028 3 +    201197 TGT
s panTro5.chr21               8810383 3 +  33445071 TGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349512 3 +  46275980 TGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333403 3 -  13858734 TGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348161 3 +  32716333 TGT
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167415367 3 - 192294377 TGT
i macFas5.chr3              C 0 C 0
s otoGar3.GL873528           24946211 3 -  38779656 TAT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087313 3 +  39895921 TAT
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e cerAty1.NW_012002954v1     13548087 0 +  21915920 C
e macNem1.NW_012015021v1      5036069 0 -  30496662 C
e rheMac8.chr3              160774514 0 - 185818997 C
e cebCap1.NW_016107322v1     13992812 6 -  14377064 I
e aotNan1.NW_018487195v1      9215496 6 -   9889416 I
e calJac3.chr21              26578639 0 +  50472720 C
e saiBol1.JH378168            8732920 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3570428 0 +   7543664 C
e chlSab2.chr2               20049862 0 -  90373283 C

a score=2805.000000
s hg38.chr21_GL383579v2_alt    199031 3 +    201197 AGG-
s panTro5.chr21               8810386 3 +  33445071 AGG-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349515 3 +  46275980 AGG-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333406 3 -  13858734 AGG-
i gorGor5.CYUI01015003v1    C 0 I 1
s nomLeu3.chr25               9348164 3 +  32716333 AGG-
i nomLeu3.chr25             C 0 I 1
s otoGar3.GL873528           24946214 3 -  38779656 AGG-
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087316 3 +  39895921 -GGA
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e cerAty1.NW_012002954v1     13548087 0 +  21915920 C
e macNem1.NW_012015021v1      5036069 0 -  30496662 C
e macFas5.chr3              167415370 0 - 192294377 C
e rheMac8.chr3              160774514 0 - 185818997 C
e cebCap1.NW_016107322v1     13992812 6 -  14377064 I
e aotNan1.NW_018487195v1      9215496 6 -   9889416 I
e calJac3.chr21              26578639 0 +  50472720 C
e saiBol1.JH378168            8732920 0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3570428 0 +   7543664 C
e chlSab2.chr2               20049862 0 -  90373283 C

a score=82116.000000
s hg38.chr21_GL383579v2_alt    199034 104 +    201197 AAgccgggcgcagtggctcatgcctgtaatctcagcactttgggaggccaaggcaggcagatgacgagggcaggagatcgagaccatcctggctaacactgtga
s panTro5.chr21               8810389 104 +  33445071 AAgccgggcgcagtggctcacgcctgtaatctcagcactttgggaggccaaggcaggcagatgacgaggacaggagatcaagaccatcctggctaacactgtga
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349518 104 +  46275980 AAgccgggcgcagtggctcacgcctgtaatctcagcactttgggaggccaaggcaggcagatgacgaggacaggagatcaagaccatcctggctaacactgtga
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333410 103 -  13858734 Aggccgggcgcagaggctcacgcctgtaatcttagcactttgggaggccaaggcgggcagatcacgaggtcaggagatc-agatcatcctggctaacacagtga
i gorGor5.CYUI01015003v1    I 1 C 0
s nomLeu3.chr25               9348168 104 +  32716333 Aggccgggcgcagtggctcacgcctgtaatctcagcactttgggaggccgaggcaggcagatcacgaggtcaggagatcgagaccatcctggctaacacagtga
i nomLeu3.chr25             I 1 C 0
s canFam3.chr31              18087319  38 +  39895921 -----------------------CAGACATGTCTTCACTT--------------------------------GGCTGTCAAAAC-----------ACACTGTGA
i canFam3.chr31             C 0 I 51
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e cerAty1.NW_012002954v1     13548087   0 +  21915920 C
e macNem1.NW_012015021v1      5036069   0 -  30496662 C
e macFas5.chr3              167415370   0 - 192294377 C
e rheMac8.chr3              160774514   0 - 185818997 C
e cebCap1.NW_016107322v1     13992812   6 -  14377064 I
e aotNan1.NW_018487195v1      9215496   6 -   9889416 I
e calJac3.chr21              26578639   0 +  50472720 C
e saiBol1.JH378168            8732920   0 +  13128814 C
e otoGar3.GL873528           24946217   0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3570428   0 +   7543664 C
e chlSab2.chr2               20049862   0 -  90373283 C

a score=154633.000000
s hg38.chr21_GL383579v2_alt    199138 194 +    201197 aaccccgtccctactaaaaaaaaa-ac-aaaaaattagccgggcgtgttggcgggcgcctctactcccagctgctcgggaggctgaggcaggagaatggcgtgaacctgggaggcggagcttgcagtgaaccgagattgtgccacggcactccagcctgggcaacaaag-cgagactctgtcttaaaaaaaaaaaaa
s panTro5.chr21               8810493 195 +  33445071 aaccccgtccctactaaaaaaaaa-accaaaaaattagccgggcgtggtggtgggcgcctctactcccagctactcgggaggctgaggcaggagaatggcgtgaacctgggaggcggagcttgcagtgaaccgagattgtgccattgcactccagcctgggcaacgaag-cgagactctgtcttaaaaaaaaaaaaa
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349622 195 +  46275980 aaccccgtccctattaaaaaaaaa-ac-aaaaaattagccgggcgtggtggtgggcgcctctactcccagctactcgggaggctgaggcaggagaatggcgtgaacctgggaggcggagcttgcagtgaaccgagattgtgccattgcactccagcctgggcaacaaagacgagactctgtcttaataaaaaaaaaa
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333513 195 -  13858734 aaccccgtctctactaaaaaaaaatac-aaaaaattagctgggtgtggtggcgggcgccggtagtcccagctactcgggaggctgaggcaggagaatggcgtgaacccaggaggcggagcttgcagtgagcggagatcgcgccactgcactccagcctgggcaacaaag-tgagactccgtcttaaagaaaaaaaaa
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348272 192 +  32716333 aaccccatctctactaaaaaaaat-gc-aaaaaattagccgggcatggtggtgggcgcctgtagtcccaggtactcgggagactgaggcaggagaatggcgtgaacctgggaggcggagcttgcagttagccaagattgtgcaactgcactccagcctgggcaacaaag-caagactccatc--aaaaaaaaaaaaa
i nomLeu3.chr25             C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e cerAty1.NW_012002954v1     13548087   0 +  21915920 C
e macNem1.NW_012015021v1      5036069   0 -  30496662 C
e macFas5.chr3              167415370   0 - 192294377 C
e rheMac8.chr3              160774514   0 - 185818997 C
e cebCap1.NW_016107322v1     13992812   6 -  14377064 I
e canFam3.chr31              18087357  51 +  39895921 I
e aotNan1.NW_018487195v1      9215496   6 -   9889416 I
e calJac3.chr21              26578639   0 +  50472720 C
e saiBol1.JH378168            8732920   0 +  13128814 C
e otoGar3.GL873528           24946217   0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3570428   0 +   7543664 C
e chlSab2.chr2               20049862   0 -  90373283 C

a score=-5142.000000
s hg38.chr21_GL383579v2_alt    199332 16 +    201197 aaaaaaaaaaaaaaaa
s panTro5.chr21               8810688 10 +  33445071 aaaaacaaaa------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349817  4 +  46275980 aaaC------------
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333708  1 -  13858734 T---------------
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348464 10 +  32716333 aaagaaaaaa------
i nomLeu3.chr25             C 0 C 0
s otoGar3.GL873528           24946217  6 -  38779656 ----CAAAAA------
i otoGar3.GL873528          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e dasNov3.JH578070            2525761 453 +   3081153 I
e cerAty1.NW_012002954v1     13548087  0 +  21915920 C
e macNem1.NW_012015021v1      5036069  0 -  30496662 C
e macFas5.chr3              167415370  0 - 192294377 C
e rheMac8.chr3              160774514  0 - 185818997 C
e cebCap1.NW_016107322v1     13992812  6 -  14377064 I
e canFam3.chr31              18087357 51 +  39895921 I
e aotNan1.NW_018487195v1      9215496  6 -   9889416 I
e calJac3.chr21              26578639  0 +  50472720 C
e saiBol1.JH378168            8732920  0 +  13128814 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3570428  0 +   7543664 C
e chlSab2.chr2               20049862  0 -  90373283 C

a score=-5045.000000
s hg38.chr21_GL383579v2_alt    199348 6 +    201197 aaaaaC--
s panTro5.chr21               8810698 1 +  33445071 -----C--
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349821 1 +  46275980 -----T--
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333709 1 -  13858734 -----G--
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348474 1 +  32716333 -----C--
i nomLeu3.chr25             C 0 C 0
s dasNov3.JH578070            2526214 6 +   3081153 --AAATGT
i dasNov3.JH578070          I 453 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e cerAty1.NW_012002954v1     13548087 0 +  21915920 C
e macNem1.NW_012015021v1      5036069 0 -  30496662 C
e macFas5.chr3              167415370 0 - 192294377 C
e rheMac8.chr3              160774514 0 - 185818997 C
e cebCap1.NW_016107322v1     13992812 6 -  14377064 I
e canFam3.chr31              18087357 51 +  39895921 I
e aotNan1.NW_018487195v1      9215496 6 -   9889416 I
e calJac3.chr21              26578639 0 +  50472720 C
e saiBol1.JH378168            8732920 0 +  13128814 C
e otoGar3.GL873528           24946223 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M
e manLeu1.NW_012103476v1      3570428 0 +   7543664 C
e chlSab2.chr2               20049862 0 -  90373283 C

a score=21906.000000
s hg38.chr21_GL383579v2_alt    199354 3 +    201197 TGT
s panTro5.chr21               8810699 3 +  33445071 TGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349822 3 +  46275980 AGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333710 3 -  13858734 TGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348475 3 +  32716333 TTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774514 3 - 185818997 TGT
i rheMac8.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036069 3 -  30496662 TGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548087 3 +  21915920 TGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049862 3 -  90373283 TGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570428 3 +   7543664 TGT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578639 3 +  50472720 TGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732920 3 +  13128814 TGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992818 3 -  14377064 TGT
i cebCap1.NW_016107322v1    I 6 C 0
s aotNan1.NW_018487195v1      9215502 3 -   9889416 TGT
i aotNan1.NW_018487195v1    I 6 C 0
s dasNov3.JH578070            2526220 3 +   3081153 TAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e macFas5.chr3              167415370 0 - 192294377 C
e canFam3.chr31              18087357 51 +  39895921 I
e otoGar3.GL873528           24946223 0 -  38779656 C
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=699377.000000
s hg38.chr21_GL383579v2_alt    199357 70 +    201197 AGGCAAGCATGCCTTTACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
s panTro5.chr21               8810702 70 +  33445071 AGGCAAGCATGCCTTTACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349825 70 +  46275980 AGGCAAGCATGCCTTTACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333713 71 -  13858734 AGGCAAACATGCCTTTACTTACCAATCACAACTTGCTGTGACTGTTAACAGCTTTTCATATATTGAATACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348478 70 +  32716333 AGGCAAACATGCCTTTACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774517 70 - 185818997 AGGTAAACATGCCTTAACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415370 70 - 192294377 AGGTAAACATGCCTTAACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036072 70 -  30496662 AGGTAAACATGCCTTAACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548090 70 +  21915920 AGGTAAACATGCCTTAACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049865 70 -  90373283 AGGTAAACATGCCTTAACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570431 70 +   7543664 AGGTAAACATGCCTTAACTTAGCAATCACAACTTGCTGTGACTG-TAACAGCTTTTCATATATTGAATACT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578642 70 +  50472720 AGGCAAACATGCCTTTACTTAGCAATCACAACTTGCTGTGATCG-TAATTGCTTTTCATATATAGAATACC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732923 70 +  13128814 AGGCAAACATGCCTTTACTTAGCAATCACAACTTGCTGTGATTG-TAATAGCTTTTCATATATTGAATACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992821 70 -  14377064 AGGCAAACATGCCTTTACTTAGCAATCACAACTCGCTGTGATTG-TAATAGCTTTTCATATATTGAATACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215505 70 -   9889416 AGGCAAACATGCCTCTACTTAGCAATCACAACTTGCTGTGATTG-TAATAGCTTTTCATATATTGAATACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946223 59 -  38779656 -------CATGCCTTTCCTGAGCCGTCACAGCACGTTGCCAATG-TAAAAACTCACCATATTT----TACT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2526223 67 +   3081153 AAACAAACATGTCTTTATTTAGCTGTCAAAACATGTTGTGAATATTAACAGCTTGTCATTTTTTTAA----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23762470 1108 +  47401472 I
e canFam3.chr31              18087357 51 +  39895921 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=171469.000000
s hg38.chr21_GL383579v2_alt    199427 17 +    201197 CCACC-TTTAAATCAAAT
s panTro5.chr21               8810772 17 +  33445071 CCACC-TTTAAATCAAAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349895 17 +  46275980 CCACC-TTTAAATCAAAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333784 17 -  13858734 CCACC-TTTAAATCAAAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348548 17 +  32716333 CCACC-TTTAAATCAAAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774587 17 - 185818997 CCACT-TTTAAATCAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415440 17 - 192294377 CCACC-TTTAAACCAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036142 17 -  30496662 CCACC-TTTAAATCAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548160 17 +  21915920 CCACC-TTTAAATCAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049935 17 -  90373283 CCACC-TTTAAATCAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570501 17 +   7543664 CCACC-TTTAAATCAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578712 17 +  50472720 CCATC-TTTAAACCAAAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8732993 17 +  13128814 CCATC-TTTAAACCAAAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992891 17 -  14377064 CCATC-TTTAAACCAAAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215575 17 -   9889416 CCATC-TTTAAACCAAAT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23763578 17 +  47401472 CCACT-TTTTAATTAAAT
i micMur3.chr31             I 1108 C 0
s otoGar3.GL873528           24946282 18 -  38779656 CTACTCTTTTAATTACAT
i otoGar3.GL873528          C 0 C 0
s dasNov3.JH578070            2526290 13 +   3081153 -----ACTTTAATGAAGT
i dasNov3.JH578070          C 0 C 0
e canFam3.chr31              18087357 51 +  39895921 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=1687302.000000
s hg38.chr21_GL383579v2_alt    199444 147 +    201197 CATTTTT-ATTTTCTTCTTGC--TGTATATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAGGTCATTA-----ATAA-TTAAATGGGTTCTTAGTCCAGGATTTAGTATTTCCTAAACCCTGTTGTCTGATGTGTTAGTTGGC
s panTro5.chr21               8810789 147 +  33445071 CATTTTT-ATTTTCTTCTTGC--TATATATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAGGTCATTA-----ATAA-TTAAATGGGTTCTTAGTCCAGGATTTAGTATTTCCTAAACCCTGTTGTCTGATGTGTTAGTTGGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22349912 147 +  46275980 CATTTTT-ATTTTCTTCTTGC--TATATATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAGGTCATTA-----ATAA-TTAAATGGGTTCTTAGTCCAGGATTTAGTATTTCCTAAACCCTGTTGTCTGATGTGTTAGTTGGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333801 149 -  13858734 CATTTTT-ATTTTCTTCTTGCTATATATATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAGGTCATTA-----ATAA-TTAAATGAGTTCTTAGACCAGGATTTAGTATTTCCTAAACCCTATTGTCTGATGTGTTAGTTGGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348565 147 +  32716333 CATTTTT-ATTTTCTTCTTGC--TATATATAATATTACACAGACAGACATGAGACAGCAACTGTGACCCAAAAGGTCATCA-----ATAA-TTAAATGGGTTCTTAGTCCAGGATTTAGTATTTGCTAAACCCTATTGTCTGACGTGTTAGTTGGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774604 147 - 185818997 CATTTTT-ATTTTCTTCTTGC--TATGTATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAAGTCATTA-----ATAA-TTACGTGGGATCTTAGTCCACGATTTAGTATTTCCTAAATCCTATTGTCTGATGTGTTAGTTGGC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415457 147 - 192294377 CATTTTT-ATTTTCTTCTTGC--TATGTATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAAGTCATTA-----ATAA-TTACGTGGGATCTTAGTCCACGATTTAGTATTTCCTAAATCCTATTGTCTGATGTGTTAGTTGGC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036159 147 -  30496662 CATTTTT-ATTTTCTTCTTGC--TATGTATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAAGTCATTA-----ATAA-TTACGTGGGATCTTAGTCCACGATTTAGTATTTCCTAAATCCTATTGTCTGATGTGTTAGTTGGC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548177 147 +  21915920 CATTTTT-ATTTTCTTCTTGC--TATGTATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAAGTCATTA-----ATAA-TTACGTGGGATCTTAGTCCATGATTTAGTATTTCCTAAATCCTATTGTCTGATGTGTTAGTTGGC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20049952 147 -  90373283 CATTTTT-ATTTTCTTCTTGC--TATGTATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAGGTCATTA-----ATAA-TTACGTGGGATCTTAGTCCACGATTTAGTATTTCCTAAACCCTATTGTCTGATGTGTTAGTTGAC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570518 147 +   7543664 CATTTTT-ATTTTCTTCTTGC--TATGTATAATGTTACACAGACAGACATGAGACAGCAACTGTGACCAAAAAAGTCATTA-----ATAA-TTACGTGGGATCTTAGTCCACGATTTAGTATTTCCTAAATCCTATTGTCTGATGTGTTAGTTGGC
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578729 140 +  50472720 CATTTCT-ATTTTCTTCTTGC--TATATTTG-------GCAGACAGACATCAGACAACAACTATGACCAGAAATGTTGTTA-----ATAA-TTACATGGGTTCTTAGTCCACAATTTAGTATTTCCTAAACCTTATTGTCTGAGGTGTTAGTTGGC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733010 140 +  13128814 CATTTCT-ATTTTCTTCTTGC--TATATTTG-------GCAGACAGACATAAGACAACAACTGTGACCAGAAATGTTGTTA-----ATAA-TTACATGAGTTCTTAGTCCACAATTTAGTATTTCCTAAACCCTATTGTCTGAGGTGTTAGTTGGC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13992908 140 -  14377064 CATTTCT-ATTTTCTCCTTGC--TATATTTG-------GCAGACAGACATGAGACAACAACTGTGACTAGAAATGTTGTTA-----ATAA-TTACATGGGTTCTTAGCCCACAAATTAGTATTTCCTAAACCCTATTGTCTGAGGTGTTAGTTGGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215592 140 -   9889416 CATTTCT-ATTTTCTTCTTGC--TATATTTG-------GCAGACAGACATGAGACAACAACTGTGACCAGAAATGTTGTTT-----ATAA-TTACATGGATTCTTAGTCCACAATTTAGTATTTCCTAAACCCTATTGTCTGAGGTGCTAGTTGGC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23763595 153 +  47401472 CATTTTGTATTTTCTTCTCAT--TATGTGTAGTGTTACACAGACAGACATGAGATAGCAACTGTGGCCATAAAAGTCCTTAATATTATAA-TTACATAGGTTCTCAGTCCACTATTTAGTATTTCCTAAAACCTATCATCTAATGTATTAGTTGGC
i micMur3.chr31             C 0 I 182
s otoGar3.GL873528           24946300 147 -  38779656 CACTTAG-ATTTTCTTCTTGT--TACATGTGGTGTTACACTGACAGACCTGAGTTAGCAACTGTGCCCGACAAAGTCCTTA-----ATAA-TTACATAAGTTTTTAGTTGACTATTTAGTATTTCCTAAAACCTATCATCTAATGTATTAGTTAGT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087408 138 +  39895921 -------CATTATAATCTTGC--TCTATATGGTGTTACATAGACAGACATGAGACAG---CTGTGATCAGAAAGGTCCTTA-----ATGA-TTATAGGAGCTCTTAGTTCACAGTTTAATCTTTCCCAGAACCTATCATTTAATATAGTAGCTGGT
i canFam3.chr31             I 51 I 1
s dasNov3.JH578070            2526303 145 +   3081153 CATTTTT-ATTTTCTTCTTGC--TACATGTGGTGTTATATAGACAAACATG-GCTAACAACTGGAACCAAAAACGTCTTTA-----GTGACTTACATGTGTTCTTAATCCAC-AGTTAGTTTTTCCTGAATCCTATAATCTAAC-TGTTAGCAGGC
i dasNov3.JH578070          C 0 C 0
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=230574.000000
s hg38.chr21_GL383579v2_alt    199591 28 +    201197 TGAACTTAAAATAGTGAACAGGAAAAGT
s panTro5.chr21               8810936 28 +  33445071 TGAACTTAAAATAGTGAACAGGAAAAGT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350059 28 +  46275980 TGAACTTAAAATAGTGAACAGGAAAAGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333950 28 -  13858734 TGAACTTAAAATCGTGAACAGGAAAAGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348712 22 +  32716333 TGAACTTAAAAT------CATGAAAAGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774751 28 - 185818997 TGAACTTAAAATCATGAAGAGGAAAAAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415604 28 - 192294377 TGAACTTAAAATCATGAAGAGGAAAAAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036306 28 -  30496662 TGAACTTAAAATCATGAAGAGGAAAAAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548324 28 +  21915920 TGAACTTAAAATCATGAAGAGGAAAAAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050099 28 -  90373283 TGAACTTAAAATCATGAAAAGGAAAAAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570665 28 +   7543664 TGAACTTAAAATCATGAAGAGGAAAAAT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578869 28 +  50472720 TGATCTTAAAATTATAAACAGGGAAACT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733150 28 +  13128814 TGATCTTAAAATTATAAACAGGAAAACT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993048 28 -  14377064 TGATCTTAAAATTATAAACAGGAAAACT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215732 28 -   9889416 TGATCTTAAAATTATAAACAGGAAAACT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946447 28 -  38779656 TTATCTTAAAACCATAGACAAGAAAAGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087547 25 +  39895921 TATCTTTAAAAATATAGACAGAAAA---
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2526448 28 +   3081153 CAATCTGAAAACTTTGGACTGAAAAACA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23763748 182 +  47401472 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=532147.000000
s hg38.chr21_GL383579v2_alt    199619 43 +    201197 AAAACTC-TTTAAAGTGTGAATATCACCGTCAACAAGAGAAGAG
s panTro5.chr21               8810964 43 +  33445071 AAAACTC-TTTAAAGTGTGAATATCACTGTCAACAAGAGAAGAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350087 43 +  46275980 AAAACTC-TTTAAAGTGTGAATGTCACTGTCAACAAGAGAAGAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8333978 43 -  13858734 AAAGCTC-TTTAAAGTGTGACTATCACTGTCAACAAGAAAAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348734 43 +  32716333 AAAACTC-TTTAAAGTGTGAATATCACTGTCAACAAGAGAAGAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774779 43 - 185818997 AAAACTC-TTTAAAGTGTGAGTATCACTGTCAACAAGAGAAGAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415632 43 - 192294377 AAAACTC-TTTAAAGTGTGAGTATCACTGTCAACAAGAGAAGAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036334 43 -  30496662 AAAACTC-TTTAAAGTGTGAGTATCACTGTCAACAAGAGAAGAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548352 43 +  21915920 AAAACTC-TTTAAAGTGTGAGTATCACTGTCAACAAGAGAAGAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050127 43 -  90373283 AAAACTC-TTTTAAGAGTGAGTATCACTGTCAACAAGAGAAGAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570693 43 +   7543664 AAAACTC-TTTAAAGTGTGAGTATCACTGTCAACAAGAGAAGAG
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578897 43 +  50472720 AAAACTC-TTTAAAGTGTGAATATCACTGTCAACAAGAGAAAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733178 43 +  13128814 AAAACTC-TTTAAAATGTGAATATCCCTGTTTAGAAGAGAAAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993076 43 -  14377064 AAAACTC-TTTAAAGTGTGAATATCACTGTCAACAAGAGAAAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215760 43 -   9889416 AAAACTC-TTTAAAGTGTGAATATCACTGTCAACAAGAGAAAAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23763930 43 +  47401472 AAAACCC-TTTTAAGTGTGGATATCACTGTCAACTGTAGAAGAG
i micMur3.chr31             I 182 C 0
s otoGar3.GL873528           24946475 42 -  38779656 AAAACTC-TTTTAAGTGTGAATATCACTGTCAACCTTGGAC-AG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087572 43 +  39895921 AAAATTC-TTTAAAGTGCAGATATCACTGACAGCCATAGAAGAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526476 44 +   3081153 AAAACTCTTTTAAAGTATGGATGCCACTGTCAACCACAGNNNNN
i dasNov3.JH578070          C 0 I 120
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=806677.000000
s hg38.chr21_GL383579v2_alt    199662 73 +    201197 ATGTTTATTCACATTATTGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAGTTTTAGAGAATTAGACCA
s panTro5.chr21               8811007 72 +  33445071 ATGTT-ATTCACATTATTGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAGTTTTAGAGAATTAGACCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350130 72 +  46275980 ATGTT-ATTCACATTATTGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAGTTTTAGAGAATTAGACCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334021 73 -  13858734 ATGTCTATTCACATTATTGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTAGAGAATTAGACCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348777 73 +  32716333 ATATTTATTCACATTATTGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAGTTTTAGAGAATTAGACCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774822 73 - 185818997 ATGTTTATTCACACTATAGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTATAGAATTAGACCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415675 73 - 192294377 ATGTTTATTCACACTATAGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTATAGAATTAGACCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036377 73 -  30496662 ATGTTTATTCACACTATAGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTATAGAATTAGACCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548395 73 +  21915920 ATGTTTATTCACACTATAGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTATAGAATTAGACCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050170 73 -  90373283 ATGTTTATTCACACTATAGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTACAGAATTAGACCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570736 73 +   7543664 ATGTTTATTCACACTATAGATCCTCAATTTTAAGACCTGTTTGTCACTCAGTAAATGTTATAGAATTAGACCA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26578940 73 +  50472720 CTGTTTATTTGCACTATTGATTCTCAATTTTAAGATCTGTTTGTCACTCATTAAATGTTATAGGGTTATACCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733221 73 +  13128814 CTGTTTATTCACACGATTGATTCTCAATTTTAAGACCTGTTTGCCATTCATTAAGTGTTACAGGATTAGGCTA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993119 73 -  14377064 CTGTTTATTCACACTATTGATTCTCAATTTTAAGAACTCTTTGCCACTCATTAAATGTTATAGGATTAGACTA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215803 73 -   9889416 TTGTTTATTCACACTATTGATTCTCAATTTTAAGACCTGTTTGTCACTCATTAAATGTTATAGGATTAGACTA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23763973 73 +  47401472 CTATTTATTCACACTATTGATCCTCAATTTTTAGATCTGTTTGACACTCAGCAAATGTTACAGAATTGGACCA
i micMur3.chr31             C 0 I 59
s otoGar3.GL873528           24946517 73 -  38779656 GAGTTTATTCACACAACTGATCCTCACTATTTAGACCTGTTTGACACTAAGAAACAGTTACAGAATTAGGCCA
i otoGar3.GL873528          C 0 I 5
s canFam3.chr31              18087615 73 +  39895921 CTGTTTATTCACAATATTGATCCTGAATTTTTAGATCTGTATGTCACTCAGCAAATGTTATAGAACGAAACCA
i canFam3.chr31             C 0 C 0
e dasNov3.JH578070            2526520 120 +   3081153 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=55344.000000
s hg38.chr21_GL383579v2_alt    199735 13 +    201197 TG-TATA--GT---------------------ACTTC
s panTro5.chr21               8811079 15 +  33445071 TG-TATATAGT---------------------ACTTC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350202 15 +  46275980 TG-TATATAGT---------------------ACTTC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334094 13 -  13858734 CG-TATA--GT---------------------ACTTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348850 13 +  32716333 TA-TATA--GT---------------------ACTTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774895 13 - 185818997 CG-TATA--GT---------------------ACTTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415748 13 - 192294377 CG-TATA--GT---------------------ACTTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036450 13 -  30496662 CG-TATA--GT---------------------ACTTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548468 13 +  21915920 CG-TATA--GT---------------------ACTTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050243 13 -  90373283 CG-TATA--GT---------------------ACTTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570809 13 +   7543664 CG-TATA--GT---------------------ACTTC
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26579013 32 +  50472720 CATTGTA--GTACAGAAAGGGCCTTCAAG---ACTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733294 31 +  13128814 CG-TATA--GTACAGAAAGGAGCTTCAAG---ACTTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993192 31 -  14377064 CG-TATA--GTACAGAAAGGACCTTCAAG---ACTTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215876 31 -   9889416 GG-TATA--GTACAGAAAGGTCCTTCAAG---ACTTC
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946595 23 -  38779656 TG-TACA--GC--------GTTTCTCAGG---ATTTT
i otoGar3.GL873528          I 5 C 0
s canFam3.chr31              18087688 34 +  39895921 CA-CATG--GTATAAAAAGAGCTTGCCAGGACTCTTC
i canFam3.chr31             C 0 C 0
e micMur3.chr31              23764046 59 +  47401472 I
e dasNov3.JH578070            2526520 120 +   3081153 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=314022.000000
s hg38.chr21_GL383579v2_alt    199748 32 +    201197 AATGGGTCTGCAATGACACTGACATAATGTGT
s panTro5.chr21               8811094 32 +  33445071 AATGGGTCTGCAATGACACTGACATAATGTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350217 32 +  46275980 AATGGGTCTGCAATGACACTGACATAATGCAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334107 32 -  13858734 AATGGGTCTGCGATGACACTGACATAATGTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348863 32 +  32716333 AACGGGTCTGCAATGACACTAACATAATATGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774908 32 - 185818997 GATGGATCTGCAATGACACTGACATAATGTGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415761 32 - 192294377 GATGGATCTGCAATGACACTGACATAATGTGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036463 32 -  30496662 GATGGATCTGCAATGACACTGACATAATGTGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548481 32 +  21915920 GATGGATCTGCAATGACACTGACATAATGTGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050256 32 -  90373283 AATGGATCTGCAATGACACTGACATAATGTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570822 32 +   7543664 GATGGATCTGCAATGACACTGACATAATGTGT
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26579045 32 +  50472720 GATAGATCTGCAAAGACATTGACATAATGTGT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733325 30 +  13128814 AATAGATCTGCAAAGACATTGAC--AATGTGT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993223 32 -  14377064 AATAGATCTGCAAAGACATTGACATAATGTGT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215907 32 -   9889416 AATAGATCTGCAAAGACATTGACGTAATGTGT
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946618 27 -  38779656 AATGGCTCTGCAGAGAGACTGAGACAA-----
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087722 29 +  39895921 AATGAACCTGCAAAGGC--TGACAAAATGTA-
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526640 32 +   3081153 GATGGATCTGTGAAGACACTGACATAAGGTGG
i dasNov3.JH578070          I 120 C 0
e micMur3.chr31              23764046 59 +  47401472 I
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=527747.000000
s hg38.chr21_GL383579v2_alt    199780 51 +    201197 TG----TTAAGGGTAGGAACAAAATAGAACTCTTC--AGTGGAAAATC-CTATGTAGC
s panTro5.chr21               8811126 51 +  33445071 TG----TTAAGGGTAGGAACAAAATAGAACTCTTC--AGTGGAAAATC-CTATGTAGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350249 51 +  46275980 TG----TTAAGGGTAGGAACAAAATAGAACTCTTC--AGTGGAAAATC-CTATGTAGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334139 51 -  13858734 TA----TTAAGGGTAGGAACAAAATAGAACTCTTC--AGTGGAAAATC-CTATGCAGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348895 55 +  32716333 TGTTAATTAAGGGTAGGAACAAAATAGAACTCTTC--AGTGGAAAATC-CTATGCAGC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774940 51 - 185818997 TG----TCAAGGGTAGGAACAAAATAGAACTCTAC--AGTGGAAAATC-CTATGCAAC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415793 51 - 192294377 TG----TCAAGGGTAGGAACAAAATAGAACTCTAC--AGTGGAAAATC-CTATGCAAC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036495 51 -  30496662 TG----TCAAGGGTAGGAACAAAATAGAACTCTAC--AGTGGAAAATC-CTATGCAAC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548513 51 +  21915920 TG----TCAAGGGTAGGAACAAAATAGAACTCTAC--AGTGGAAAATC-CTATGCAAC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050288 51 -  90373283 TG----TCAAGGGTAGGAACAAAATAGAACTCTAC--AGTGGAAAATC-CTATGCAGG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570854 51 +   7543664 TG----TCAAGGGTAGGAACAAAATAGAACTCTAC--AGTGGAAAATC-CTATGCAAC
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26579077 51 +  50472720 TG----TTAAGGGTAGGAATAAAATAGAATTCTAC--AGTAGAAAATT-CCATACATC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733355 51 +  13128814 TG----TTAAGGGTAGGAACAAAACAGAACTCTAC--AGTAGAAAATT-CCATACAGC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993255 51 -  14377064 TG----TTAAGGGTAGGAACAAAATAGAACTCTAC--AGTAGAAAATT-CCATACAGC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215939 51 -   9889416 TG----TTAAGGGTAGTAACAAAATAGAACTCTAC--AGCAGAAAATT-TCATGCAGC
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23764105 52 +  47401472 TG----TTAAAGGTAGAAACTAAATGGAACTCTGC--AGTGGAAAATCTTCTTGAAGC
i micMur3.chr31             I 59 C 0
s otoGar3.GL873528           24946645 52 -  38779656 TG----TTAAACGGACAAATTCCATAGAACTCTGC--AGTGCAAAATCTCTTTGAAGC
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087751 50 +  39895921 --------ACAGGTAAAAACTAAATAGAACTCTGTGAGGTAGAAAATCCCCTTGTAGC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526672 53 +   3081153 GG----AAGTAGGAAGAAACTAAATAGAATTCTGTCTAGTAAAAGTGT-CCTTGATGC
i dasNov3.JH578070          C 0 C 0
e colAng1.NW_012120598v1      5322109 2565 -  13750039 M

a score=219247.000000
s hg38.chr21_GL383579v2_alt    199831 18 +    201197 CTTTTATTTAGTGGAAAG
s panTro5.chr21               8811177 18 +  33445071 CTTTTATTTAGTGGAAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350300 18 +  46275980 CTTTTATTTAGTGGAAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334190 18 -  13858734 CTTTTATTTAGTGGAAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348950 18 +  32716333 CTTTTATTTAGTGGAAAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160774991 17 - 185818997 CTTTTATTTAGTGT-AAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415844 17 - 192294377 CTTTTATTTAGTGG-AAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036546 17 -  30496662 CTTTTATTTAGTGG-AAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548564 17 +  21915920 CTTTTATTTAGTGG-AAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050339 18 -  90373283 CTTTTATTTAGTGGAAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570905 17 +   7543664 CTTTTATTTAGTGG-AAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324707 18 -  13750039 CTTTTATTTAGTAGAAAG
i colAng1.NW_012120598v1    M 2565 C 0
s calJac3.chr21              26579128 18 +  50472720 CTTTTATTTAGTGGCAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733406 18 +  13128814 CTTTTATTAAGTGGCAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993306 18 -  14377064 CTTTTATTAAGTGACAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9215990 18 -   9889416 CTTTTATTAAGTGGCAAG
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23764157 18 +  47401472 CTTTTATTTAGTGGAAAG
i micMur3.chr31             C 0 I 46
s otoGar3.GL873528           24946697 18 -  38779656 CTTCTATTTAGTGGAAAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087801 17 +  39895921 -CTTTGTTTAACGGAAAC
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526725 17 +   3081153 -CTTTGCTTAATAGAAAG
i dasNov3.JH578070          C 0 C 0

a score=167178.000000
s hg38.chr21_GL383579v2_alt    199849 14 +    201197 GGATCTGCAAGAAA
s panTro5.chr21               8811195 14 +  33445071 GGATCTGCAAGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350318 14 +  46275980 GGATCTGCAAGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334208 14 -  13858734 GGATTTGCAAGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348968 14 +  32716333 GGATCTGCAAGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775008 14 - 185818997 AGATTTGCAAGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415861 14 - 192294377 AGATTTGCAAGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036563 14 -  30496662 AGATTTGCAAGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548581 14 +  21915920 AGATTTGCAAGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050357 14 -  90373283 GGATTTGCAAGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570922 14 +   7543664 AGATTTGCAAGAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324725 14 -  13750039 GGATTTGCAAGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579146 14 +  50472720 GGAGTTGCAAGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733424 14 +  13128814 GAAGTTGCAAGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993324 14 -  14377064 GGAGTTGCAAGAAA
i cebCap1.NW_016107322v1    C 0 I 42
s aotNan1.NW_018487195v1      9216008 14 -   9889416 GGTATTGCAAGAAA
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946715 14 -  38779656 AGAGTTACAAGAAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087818 14 +  39895921 AGAGCTGGAAGAAA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526742 14 +   3081153 ACAGTGGCAAGAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764175 46 +  47401472 I

a score=-33619.000000
s hg38.chr21_GL383579v2_alt    199863 26 +    201197 GC--Cgtgtgtctgtgtgt------------------------------gtgtgtgtg
s panTro5.chr21               8811209 26 +  33445071 GC--Cgtgtgtgtgtttgt------------------------------gtgtgtgtg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350332 23 +  46275980 GC--Cgtgtgtgtgt---t------------------------------gtgtgtgtg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334222 23 -  13858734 GC--TTtgtgtgtgcgtg---------------------------------gtgtgtg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9348982 56 +  32716333 GC--CGTGTGTGTGTGCGTGCGTGCACGCgtgtgtgtgtgtgtgcgtgggtgtgtgtg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775022  6 - 185818997 GC----------------------------------------------------TCGg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415875  6 - 192294377 GC----------------------------------------------------TCtg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036577  6 -  30496662 GC----------------------------------------------------TCtg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548595 22 +  21915920 GC--tgtgtgtgtgt----------------------------------gcgtgtgtg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050371  8 -  90373283 GC--------------------------------------------------tgtgtg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570936 22 +   7543664 GC--tgtgtgtgtgt----------------------------------gcgtgtgtg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324739 24 -  13750039 GCtgtgtgtgtgtgt----------------------------------gtgtgtgtg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579160 26 +  50472720 GC--tgtgtgtgtgtgtgt------------------------------gtgtgtgtg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733438 26 +  13128814 GC--tgtgtgtgtgtgtgt------------------------------gtgtgtgtg
i saiBol1.JH378168          C 0 C 0
s aotNan1.NW_018487195v1      9216022 26 -   9889416 GC--tgtgtgtgtgtgtgt------------------------------gtgtgtgtg
i aotNan1.NW_018487195v1    C 0 I 1
s otoGar3.GL873528           24946729  3 -  38779656 GC--T-----------------------------------------------------
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087832  1 +  39895921 G---------------------------------------------------------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526756  5 +   3081153 GC--TTT---------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764175 46 +  47401472 I
e cebCap1.NW_016107322v1     13993338 42 -  14377064 I

a score=17381.000000
s hg38.chr21_GL383579v2_alt    199889 2 +    201197 tg
s panTro5.chr21               8811235 2 +  33445071 tg
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350355 2 +  46275980 tg
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334245 2 -  13858734 tg
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349038 2 +  32716333 tg
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775028 2 - 185818997 tg
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415881 2 - 192294377 tg
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036583 2 -  30496662 tg
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548617 2 +  21915920 tg
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050379 2 -  90373283 tg
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570958 2 +   7543664 tg
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324763 2 -  13750039 tg
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579186 2 +  50472720 tg
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733464 2 +  13128814 tg
i saiBol1.JH378168          C 0 C 0
e micMur3.chr31              23764175 46 +  47401472 I
e dasNov3.JH578070            2526761 0 +   3081153 C
e cebCap1.NW_016107322v1     13993338 42 -  14377064 I
e canFam3.chr31              18087833 0 +  39895921 C
e aotNan1.NW_018487195v1      9216048 1 -   9889416 I
e otoGar3.GL873528           24946732 0 -  38779656 C

a score=242350.000000
s hg38.chr21_GL383579v2_alt    199891 31 +    201197 tgtgtgtgtgtgtgtgtgcgtgtATGTTTGT
s panTro5.chr21               8811237 15 +  33445071 tgtgtgtgtgtATGT----------------
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350357 31 +  46275980 tgtgtgtgtgtgtgtgtgtgtgtATGTTTGT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334247 31 -  13858734 tgtgtgtgtgtgtgtgtgtgtgtATGTTTGT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349040 31 +  32716333 cgtgtatgtgtgtgtgtgtgtgtATGTTTGT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775030 31 - 185818997 tgtgtgtgtgtgtgtgtgtgtgtATGTTTGT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415883 31 - 192294377 tgtgtgtgtgtgtgtgtgtgtgtATGTTTGT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036585 31 -  30496662 tgtgtgtgtgtgtgtgtgtgtgtATGTTTGT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548619 31 +  21915920 tgtgtgtgtgtgtgtgtgtgtgtgtgtTTGT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050381 31 -  90373283 tgcgtgtgtgtgtgtgtgtgtgtATGTTTGT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570960 31 +   7543664 tgtgtgtgtgtgtgtgtgtgtgtgtgtTTGT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324765 31 -  13750039 tgtgtgtgtgtgtgtgtgtgtgtgtATTTGT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579188 13 +  50472720 ------------------tgtgtgtgtgtgt
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733466 31 +  13128814 tgtgtgtgtgcgtgtgtatgtgtgtgtgtgt
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993380 31 -  14377064 tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt
i cebCap1.NW_016107322v1    I 42 C 0
s otoGar3.GL873528           24946732 25 -  38779656 --TGTGTATGTGAATATATGCGTATGT----
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087833 22 +  39895921 -ATATATGGGAGTGTATGTGCGT--------
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526761 21 +   3081153 --TGTGTGTGAGTGTATATGTGT--------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764175 46 +  47401472 I
e aotNan1.NW_018487195v1      9216048  1 -   9889416 I

a score=53815.000000
s hg38.chr21_GL383579v2_alt    199922 4 +    201197 TAGA
s panTro5.chr21               8811252 4 +  33445071 TAGA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350388 4 +  46275980 TAGA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334278 4 -  13858734 TAGA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349071 4 +  32716333 TAGA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775061 4 - 185818997 TAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415914 4 - 192294377 TAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036616 4 -  30496662 TAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548650 4 +  21915920 TAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050412 4 -  90373283 TAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570991 4 +   7543664 TAGA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324796 4 -  13750039 TAGA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579201 4 +  50472720 TAGA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733497 4 +  13128814 TAGA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993411 4 -  14377064 TAGA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216049 4 -   9889416 TAGA
i aotNan1.NW_018487195v1    I 1 C 0
s otoGar3.GL873528           24946757 4 -  38779656 TGGG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087855 4 +  39895921 TGGA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526782 4 +   3081153 TGGG
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764175 46 +  47401472 I

a score=303836.000000
s hg38.chr21_GL383579v2_alt    199926 20 +    201197 CAAAGCTCCCAGAATAGACT
s panTro5.chr21               8811256 20 +  33445071 CAAAGCTCCCAGAATAGACT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350392 20 +  46275980 CAAAGCTCCCAGAATAGACT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334282 20 -  13858734 CAAAGATCCCAGAATAGACT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349075 20 +  32716333 CAAAGCTCCCACAATAGACT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775065 20 - 185818997 CACAGCTCCCAGAATAGACT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415918 20 - 192294377 CACAGCTCCCAGAATAGACT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036620 20 -  30496662 CACAGCTCCCAGAATAGACT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548654 20 +  21915920 CACAGCTCCCAGAATAGACT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050416 20 -  90373283 CACAGCTCCCAGAATAGACT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3570995 20 +   7543664 CACAGCTCCCAGAATAGACT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324800 20 -  13750039 CACAGCTCCCAGAATAGACT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579205 20 +  50472720 CAAAGCTTCCAGAATAGACT
i calJac3.chr21             C 0 I 309
s saiBol1.JH378168            8733501 20 +  13128814 CAAAGCTTCCAGAATAGACT
i saiBol1.JH378168          C 0 I 336
s cebCap1.NW_016107322v1     13993415 20 -  14377064 CAAAGCTTCCAGAATAGACT
i cebCap1.NW_016107322v1    C 0 I 309
s aotNan1.NW_018487195v1      9216053 20 -   9889416 CAAAGCTTCCAGAATAGACT
i aotNan1.NW_018487195v1    C 0 I 317
s micMur3.chr31              23764221 20 +  47401472 CAAAGTTCCCAGAATAGACT
i micMur3.chr31             I 46 C 0
s otoGar3.GL873528           24946761 20 -  38779656 CAAAGTTCCCAGAATAGACT
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087859 20 +  39895921 CAAAATTTCCAGAATAGACA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526786 20 +   3081153 CAAAGTTCCTAGAATAGACA
i dasNov3.JH578070          C 0 C 0

a score=116269.000000
s hg38.chr21_GL383579v2_alt    199946 9 +    201197 TAAAATGAA
s panTro5.chr21               8811276 9 +  33445071 TAAAATGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350412 9 +  46275980 TAAAATGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334302 9 -  13858734 TAAAATGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349095 9 +  32716333 TAAAATGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775085 9 - 185818997 TAAAACGAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415938 9 - 192294377 TAAAACGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036640 9 -  30496662 TAAAACGAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548674 9 +  21915920 TAAAACAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050436 9 -  90373283 TAAAACGAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571015 9 +   7543664 TAAAATAAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324820 9 -  13750039 TAAAACGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579534 9 +  50472720 taaaatGAA
i calJac3.chr21             I 309 C 0
s saiBol1.JH378168            8733857 9 +  13128814 taaaATGAA
i saiBol1.JH378168          I 336 C 0
s cebCap1.NW_016107322v1     13993744 9 -  14377064 taaaaTGAA
i cebCap1.NW_016107322v1    I 309 C 0
s aotNan1.NW_018487195v1      9216390 9 -   9889416 taaaATGAA
i aotNan1.NW_018487195v1    I 317 C 0
s micMur3.chr31              23764241 9 +  47401472 TAAAATGAA
i micMur3.chr31             C 0 I 38
s otoGar3.GL873528           24946781 8 -  38779656 T-AAATGAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087879 9 +  39895921 TAATATGAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526806 9 +   3081153 CAAAAGGGG
i dasNov3.JH578070          C 0 C 0

a score=449450.000000
s hg38.chr21_GL383579v2_alt    199955 37 +    201197 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTTAAG
s panTro5.chr21               8811285 37 +  33445071 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTTAAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350421 37 +  46275980 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTTAAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334311 37 -  13858734 GCTTGTCTTTGTGTGAGGTCTT-TGACAAAGAATGAAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349104 37 +  32716333 GCTTGTCTTTTTGTGAGGTCTT-TGACAAAGAGTGAAT
i nomLeu3.chr25             C 0 I 2
s rheMac8.chr3              160775094 37 - 185818997 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTGAAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415947 37 - 192294377 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTGAAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036649 37 -  30496662 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTGAAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548683 37 +  21915920 GCTTGTCTTTTTGTGAGGTCTT-TGACAAAGAGTGAAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050445 37 -  90373283 GCTTGTCTTTTTGTGAGGCCTT-TGACAAAGAGTGAAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571024 37 +   7543664 GCTTGTCTTTTTGTGAGGTCTT-TGACAAAGAGTGAAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324829 37 -  13750039 GCTTGTCTTTTTGTGAGGTCTT-TGACAAAGAGTGAAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579543 37 +  50472720 GCTTGTCTTTTCGTGAGGTCTT-TGACAAAGAGGGAAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733866 37 +  13128814 GCTTGTCTTTTTGTTAGGTCTT-TGACAAAGAGGGAAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993753 37 -  14377064 GCTTGTCTTTTTGTGAGGTCTT-TGACAAAGAGGGAAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216399 37 -   9889416 GCTTGTCTTTTTGTGAGGTCTT-TGACAAAGAGGGAAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946789 38 -  38779656 GCTTGCCATTATGCAAGGCTTCGTGACACAGTGGGAAG
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087888 37 +  39895921 GCTTGACATTGTGTGTGGTCTT-TAACATGATGGGAAG
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2526815 37 +   3081153 GCTTGCCATTGTCTAACGTTTT-TGACACGGCAGAAAA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764250 38 +  47401472 I

a score=1771977.000000
s hg38.chr21_GL383579v2_alt    199992 147 +    201197 CACCATTCCAAAAACCTCACTCTGCCTTATTCCTGTCCAATTCTGTATCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACG-TGCTACTTTC-TTAACCTTTCTACCATATCTTAGAAACCCTAAATAA
s panTro5.chr21               8811322 147 +  33445071 CACCATCCCAAAAACCTCACTCTGCCTTATTCCTGTCCAATTCTGTATCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACG-TGCTACTTTC-TTAACCTTTCTACCATATCTTAGAAACCCTAAATAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350458 147 +  46275980 CACCATTCCAAAAACCTCACTCTGCCTTATTCCTGTCCAATTCTGTATCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACG-TGCTACTTTC-TTAACCTTTCTACCATATCTTAGAAACCCTAAATAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334348 147 -  13858734 CACCATCCCAAAAACCTCACTCTGCCTTATTCCTGTCCAATTCTGTCTCTTTATAGTCTATGAGTGTTCACATTTTATAATTATTCAGAC-CTATTG-GAACG-TGCTACTTTC-TTAACCTTTCTACCGTATCTTAGAAACCCTAAATAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349143 147 +  32716333 CACTATTCCAAAAACCTCACTCTGCCTTATTCCTGTCCAATTCTGTCTCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACG-TGCCACTTTC-TTAACCTTTCTACCATATCTTAGAAACCCTAAATAA
i nomLeu3.chr25             I 2 C 0
s rheMac8.chr3              160775131 147 - 185818997 CACCATTCCAAAAACCTCACTTTGTCTTATTCCCATCCAATTCTGTCTCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACA-TGCTACTTTC-TTAACCTTTCTACCATATATTAGAAACCCTAAATAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167415984 147 - 192294377 CACCATTCCAAAAACCTCACTTTGCCTTATTCCCATCCAATTCTGTCTCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACA-TGCTACTTTC-TTAACCTTTCTACCATATATTAGAAACCCTAAATAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036686 147 -  30496662 CACCATTCCAAAAACCTCACTTTGCCTTATTCCCATCCAATTCTGTCTCTTTATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACA-TGCTACTTTC-TTAACCTTTCTACCATATATTAGAAACCCTAAATAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548720 146 +  21915920 CACCATTCCAAAAACTTCACTTTGCCTTGTTCCCATCCAATTCTGTCTCTTTATAGTCTATTAGTGTTCATATTTTATAATTATTCAGAC-CTATA--GAACA-TGCTACTTTC-TTAACCTTTCTACCATATATTAGAAACCCTAAATAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050482 143 -  90373283 CACCATTCCAAAAACCTCACTTTGCCTTATTCCCATCCAATTCTGTC----TATAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACA-TGCTACTTTC-TTAACCTTTCTACCATGTATTAGAAATCCTAAATAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571061 146 +   7543664 CACCATTCCAAAAACTTCACTTTGCCTTGTTCCCATCCAATTCTGTCTCTTTATAGTCTATTAGTGTTCATATTTTATAATTATTCAGAC-CTATA--GAACA-TGCTACTTTC-TTAACCTTTCTACCATATATTAGAAACCCTAAATAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5324866 147 -  13750039 CACCATTCCAAAAACCTCACTCTGCCTTATTCCCGTCTGATTCTGTCTCTTTACAGTCTATTAGTGTTCACATTTTATAATTATTCAGAC-CCATAG-GAACA-TGCTACTTTC-TTAACCTTTCTACCATATATTAGAAACCCTAAATAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579580 142 +  50472720 CACCTTTCTAAAAGCCTCACTCTGCCTTACTTCTGTCCAATTCTATCTTTTTATAGTCTATCAGTGTTCACATCTTATAACTATTTAGAC-CCACAG-GAACA-TGCTACTTCT-TAAAGCTTTCTACTATAT-----AAATCCTATATCA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8733903 138 +  13128814 CACCTTTCTAAAAACCTCACTCTGCCTTACTCTTGTCCAAT----TCTCTTTATGGTCTTTCAGTGTTCACATCTTATAATTATTTAGAC-CTGAAG-GAACA-TGCTACTTCT-TAAAACTTTCTACCAAAT-----AAATCCTATATCA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993790 142 -  14377064 CACCTTTCCAAAAACCGCACTCTGCCTTACTCCTGTCCAGTTCTATCTCTTTATAGTCTATCAGTGTTCACAACTTATAATTATTTAGAC-CCACAG-GAACA-TGCTACTTCT-TAAAACTTTCTACCATAT-----AAATCCTATATCA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216436 142 -   9889416 CACCTTTCCAAAAACCTCACTCTGCCTTACTCCTGTCCAATTCTATTTCTTTAGAGTCTATCAGTGTTCACATCTTACAATTATTTAGAC-CCGCAG-GAACA-TGCTACTTCT-TAAAACTTTGTACCATAT-----AAATCCTGTATCA
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23764288 146 +  47401472 CACCTTTCCAGAAATCTCACTGTGCCTTACTCTTGCCCAATTCTGCCTCCTTATGGTCCATTAATGTTCATATTTTATAATCATTCAAAC-TCAAGG-GAACA-TGCTAACTTT-TT-ACCTTTGTGCCATATCTTAGAATCCCTATATAA
i micMur3.chr31             I 38 I 1122
s otoGar3.GL873528           24946827 145 -  38779656 CACCTTCCCA-CCATCTCACTGCACCTTACACTTGCCTAATTCTGTCCCCTGATGGTCCATTAATGTTTATATTTCATAACCACTCAGAC-CCAAGG-GAACA-CGTTAACTTT-TT-ACCTTAGTATTATATCTTAGAACACCTATATAA
i otoGar3.GL873528          C 0 C 0
s canFam3.chr31              18087925 144 +  39895921 TATGATTCCAACAATCTCAGTGTGCCTTATTCCTGCCCATTTCTGCCTTCTTATGGTCCAACACTGTTCTTATTGTGTAATCATTCAGAC-ACGAGGAGAACG-TGCCACTTT-----ATCTTTTTACCACATCTTAGAACCACTATATAT
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2526852 150 +   3081153 CACTATTCCAAAAATCTCACTGTGCCTTATTTCTACCTATTTCTGTTTTCTAATAGTCCAGCAATGTTTGTATTTCATAATCATTCGAATGTCACAA-GACTACTGCTATTTTTATTTACTTTTGTACCATATCTTAGAACTCCTACATAA
i dasNov3.JH578070          C 0 C 0

a score=394713.000000
s hg38.chr21_GL383579v2_alt    200139 37 +    201197 TTCATGGTCTGTTTTT--ACCTTAAAGTGATTTTCACAG
s panTro5.chr21               8811469 37 +  33445071 TTCATGGTCTGTTTTT--ACCTTAAAGTGATTTTCACAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350605 37 +  46275980 TTCATGGTCTGTTTTT--ACCTTAAAGTGATTTTCACAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334495 37 -  13858734 TTCATGGTCTGTTTTT--ACCTTAAAGTGATTTTCACAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349290 37 +  32716333 TTCATGATCTGTTTTT--ACCATAAAGTTATTTTCACAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775278 37 - 185818997 TTCATGATTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416131 37 - 192294377 TTCATGATTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036833 37 -  30496662 TTCATGATTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548866 37 +  21915920 TTCATGATTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050625 39 -  90373283 TTCATGATTTGTTCTTGAACCTTAAAGTGATTTTCACAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571207 37 +   7543664 TTCATGATTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325013 37 -  13750039 TTCATGATTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579722 37 +  50472720 TTCATGATTTGTTCTT--ACCTTACAGTGATTTTCACAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734041 37 +  13128814 TTCATGGTTTGTTCTT--ACCTTAAAGTGATTTTCATAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993932 37 -  14377064 TTCATGGTTTGTTCTT--ACCTTAAAGTGATTTTCACAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216578 35 -   9889416 TTCATGGTTTGTTCTT--ACCTT--AGTGATTTTCACAG
i aotNan1.NW_018487195v1    C 0 C 0
s otoGar3.GL873528           24946972 32 -  38779656 ---CTGATTCTTCGTT--G--TTTAAGCTGTTCTCACAG
i otoGar3.GL873528          C 0 N 0
s canFam3.chr31              18088071 35 +  39895921 ATCATTGCTTGTTTTT--ACCTTAAGCTACCCTCCAG--
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2527002 31 +   3081153 ------CTCTGTTTTT--GGCTTCAGGCTATTCTCAGAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I

a score=309946.000000
s hg38.chr21_GL383579v2_alt    200176 35 +    201197 TC--ATAGACAAGTCAGTTTAAAGTAATG----------------TGACACAG
s panTro5.chr21               8811506 35 +  33445071 TC--ATAGACAAGTCAATTTAAAGTAATG----------------TGACACAG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350642 35 +  46275980 TC--ATAGACAAGTCAATTTAAAGTAATG----------------TGACACAG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334532 35 -  13858734 TC--ATAGACAAGTCAATTTAAAGTAATA----------------TGACAGAG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349327 35 +  32716333 TC--ATAGACAAGTCAATTTAAAGTAATA----------------TGACACAG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775315 35 - 185818997 TT--ATAGACAAGTCAATTTAAAATAATA----------------TGACACAG
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416168 33 - 192294377 TT--ATAGACAAGTCAATTTAAAATAATA----------------TG--ACAG
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036870 35 -  30496662 TT--ATAGACAAGTCAATTTAAAATAATA----------------TGACACAG
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548903 35 +  21915920 TC--ATAGACAAGTCAATTTAAAATAATA----------------TGACATAG
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050664 35 -  90373283 TC--ATAGACAAGTCAGTTTAAAATAATA----------------TGACACAG
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571244 35 +   7543664 TC--ATAGACAAGTCAATTTAAAATAATA----------------TGACATAG
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325050 35 -  13750039 TC--ATAGACAAGTCAATTTAAAATAATA----------------TGACACAG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579759 34 +  50472720 TCATATATACAAGCCAATTTTG---AATA----------------TGACACAG
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734078 37 +  13128814 TCATATATACAAGCCAATTTTAAATAATA----------------TGACACAG
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13993969 37 -  14377064 TCACATATACAATCCAATTTTAAATAATA----------------CGACACAG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216613 37 -   9889416 TCATATATACAAGCCAATTTTAAATAATA----------------TGACATAG
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18088106 51 +  39895921 --GTATAGATAAATCATTTTAAAATAATAACATggtgcgcctgggtgattcag
i canFam3.chr31             C 0 I 175
s dasNov3.JH578070            2527033 30 +   3081153 -------GACAAATCATTTACAAATAATA----------------ACACAAAG
i dasNov3.JH578070          C 0 I 3
e micMur3.chr31              23764434 1122 +  47401472 I

a score=795732.000000
s hg38.chr21_GL383579v2_alt    200211 77 +    201197 AGTAACAAAATGAAC---------------AAAAaagcattttgctaagctctttatacacactgccatg-ttgttcttta-tgacaaatttat
s panTro5.chr21               8811541 77 +  33445071 AGTAACAAAATGAAC---------------AAAAaagcattctgctaagctctttatacacactgccatg-ttgttcttta-tgacaaatttat
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350677 77 +  46275980 AGTAACAAAATGAAC---------------AAAAaagcattctgctaagctctttatacacactgccatg-ttgttcttta-tgacaaatttat
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334567 77 -  13858734 AGTAACAAAATGAAC---------------AAAAaagcattctgctaagctctttatacacactgccatg-ttgttcttta-tgacaaatttat
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349362 77 +  32716333 AGTTACAAACTGAAC---------------AAAAaagcattctgctaagctttttatacacaccgccatg-ttgttcttta-tgacaaatttat
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775350 77 - 185818997 AGTAACAAAATGAAC----------------AAAAATcattctgttaagctctttatacacactgccatgtttgttcttta-tgacaaatttat
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416201 77 - 192294377 AGTAACAAAATGAAC----------------AAAAATcattctgttaagctctttatacacactgccatgtttgttcttta-tgacaaatttat
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036905 77 -  30496662 AGTAACAAAATGAAC----------------AAAAATcattctgttaagctctttatacacactgccatgtttgttcttta-tgacaaatttat
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13548938 78 +  21915920 AGTAACAAAATGAAC---------------AAAAaagcattctgttaagctctttatacacactgccatatttgttcttta-tgacaaatttat
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050699 78 -  90373283 AGTAACAAAATGAAC---------------AAAAaagcattctgttaagctctttatacacactgccatatttgttcttta-tgacaaatttat
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571279 78 +   7543664 AGTAACAAAATGAAC---------------AAAAaagcattctgttaagctctttatacacactgccatatttgttcttta-tgacaaatttat
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325085 78 -  13750039 AGTAACAAAATGAAC---------------AAAAaagcattctgttaagctctttatacacactgccatatttgttcttta-tgacaaatttat
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579793 78 +  50472720 AGTAGCAAAATGAAC---------------AAAAaagcatgctgctaagctctttatacacactgccatattttttcttta-tgacatatttat
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734115 78 +  13128814 AGTGACAACATGAAC---------------AAAAaagcattctgataagctcttcatacacactaccgtatttcttcttta-tgacacatttgc
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994006 78 -  14377064 AGTAACAAAATGAAC---------------AAAAATgcattctgctaagctctttatacacactgccatatttcttcttta-tgacacacttat
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216650 78 -   9889416 AGTAACAAAATGAAC---------------AAAAaagcattatgctaagctctttatacacactgccatatttcttcttta-tgacatatttat
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18088332 94 +  39895921 AATAACATAAAGAATAATAGAAAATGAGTAAAAAAGGAATTGTGCTAATTTCTTTACGGACATCATCGTATTAATTTCttatttatttatttat
i canFam3.chr31             I 175 I 314
s dasNov3.JH578070            2527066 76 +   3081153 AATAGCAAAATTTTT---------------AAAAAGTAactccactaagct-tttataggcattgtttcgtgtatt-ttta-tgataaacttat
i dasNov3.JH578070          I 3 C 0
e micMur3.chr31              23764434 1122 +  47401472 I

a score=464204.000000
s hg38.chr21_GL383579v2_alt    200288 48 +    201197 gaggtaggttccttagccccatttcacaggctgagaacctgagactgt
s panTro5.chr21               8811618 48 +  33445071 gacgtaggttccttagccccatttcacaggctgagaacctgagactgt
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350754 48 +  46275980 gaggtaggttccttagccccatttcacaggctgagaacctgagactgt
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334644 48 -  13858734 gaggtaggttccttagccccatttcacaggctgagaacctgagactgt
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349439 48 +  32716333 gaggtaggttccttagcaccatttcacaggctgagaacctgagactgt
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775427 47 - 185818997 gaggcaggttccttagccccatttcacaggctgagaacc-gagactgt
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416278 47 - 192294377 gaggcaggttccttagccccatttcacaggctgagaacc-gagactgt
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5036982 47 -  30496662 gaggcaggttccttagccccatttcacaggctgagaacc-gagactgt
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549016 47 +  21915920 gaggcagttttcttagccctatttcacaggctgagaacc-gagactgt
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050777 48 -  90373283 gaggcagtttccttagccctatttcacaggctgagaacctgagactgt
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571357 47 +   7543664 gaggcagttttcttagccctatttcacaggctgagaacc-gagactgt
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325163 48 -  13750039 gaggtaggttccttagccccatttcacaggctgagaacctgagactgt
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579871 48 +  50472720 gaggcagctactttgaccccatgtcacaggctgagaaactgagattgt
i calJac3.chr21             C 0 I 8
s saiBol1.JH378168            8734193 48 +  13128814 gaggtagctactttgaccccatgtcacaggctgagaaactgagactgt
i saiBol1.JH378168          C 0 I 8
s cebCap1.NW_016107322v1     13994084 48 -  14377064 gaggtagctactttgaccccatgtcacaggctgagaaactgagactgt
i cebCap1.NW_016107322v1    C 0 I 8
s aotNan1.NW_018487195v1      9216728 48 -   9889416 aaggtagctactttgaccccatgtcacaagctgagaaactgagactgt
i aotNan1.NW_018487195v1    C 0 I 87
s dasNov3.JH578070            2527142 48 +   3081153 gaggttaatgtattagctccatttcacatgttgagaaaccgagactga
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I
e canFam3.chr31              18088426 314 +  39895921 I

a score=474419.000000
s hg38.chr21_GL383579v2_alt    200336 55 +    201197 caacactaagctgattttactgtgattacatcttagtgagtgacagatctagCAA
s panTro5.chr21               8811666 55 +  33445071 caacactaagctgattttactgtgattacatctaagtgagtgacagatctagCAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350802 55 +  46275980 caacactaagctgattttactgtgattacatcttagtgagtgacagatctagCAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334692 55 -  13858734 caacactaagctgatttcactgtgattacatcttagtgagtgacagatctagCAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349487 54 +  32716333 caacactaagctgatttcacggtgattacatctta-tgagtgacagatctagCAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775474 55 - 185818997 caaaactaagctgatttcactgtgattacatcttagtgagtgatagacttagCAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416325 55 - 192294377 caaaactaagctgatttcactgtgattacatcttagtgagtgatagacttagCAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037029 55 -  30496662 caaaactaagctgatttcactgtgattacatcttagtgagtgatagacttagCAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549063 55 +  21915920 caaaactaagctgatttcactgtgattacatcttagtgagtgatagaCTTAGCAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050825 55 -  90373283 caaaactaagctgatttcactgtgattacatcttagtgagtgatagaCTTAGCAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571404 55 +   7543664 caaaactaagctgatttcactgtgattacatcttagtgagtgatagacctagCAA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325211 55 -  13750039 caaaactaagctgatttcactgtgattacatcttagtgagtgatagacctagCAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579927 55 +  50472720 GAACACTAAGCAGATTTCACTGTGATTACATCTTAGTTAGTGATAGACGTAGCAA
i calJac3.chr21             I 8 I 1
s saiBol1.JH378168            8734249 55 +  13128814 gaacactaagctgatttcactgtgattacatcttagtgagtgatagaCGTAGCAA
i saiBol1.JH378168          I 8 I 1
s cebCap1.NW_016107322v1     13994140 55 -  14377064 gaacactaagctgatttcactgtgattacatcttagtgagtgatagacctagCAA
i cebCap1.NW_016107322v1    I 8 I 16
s dasNov3.JH578070            2527190 40 +   3081153 gaaaacttaggtaacatc-ctaaaatcacacc--------tgacaaacc------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I
e canFam3.chr31              18088426 314 +  39895921 I
e aotNan1.NW_018487195v1      9216776 87 -   9889416 I

a score=103481.000000
s hg38.chr21_GL383579v2_alt    200391 15 +    201197 TCATGGAATTGAGAA
s panTro5.chr21               8811721 15 +  33445071 TCATGGAATTGAGAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350857 15 +  46275980 TCATGGAATTGAGAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334747 15 -  13858734 TCATGGAATTGAGAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349541 15 +  32716333 TCATGGAATTGAGAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775529 15 - 185818997 TCATGGGATTGAGAA
i rheMac8.chr3              C 0 I 21
s macFas5.chr3              167416380 15 - 192294377 TCATGGGATTGAGAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037084 15 -  30496662 TCATGGGATTGAGAA
i macNem1.NW_012015021v1    C 0 I 21
s cerAty1.NW_012002954v1     13549118 15 +  21915920 TCATGGGATTGAGAA
i cerAty1.NW_012002954v1    C 0 I 21
s chlSab2.chr2               20050880 15 -  90373283 TCATGGGATTGAGAA
i chlSab2.chr2              C 0 I 21
s manLeu1.NW_012103476v1      3571459 15 +   7543664 TCATGGGATTGAGAA
i manLeu1.NW_012103476v1    C 0 I 22
s colAng1.NW_012120598v1      5325266 15 -  13750039 TCATGGGATTGAGAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579983 15 +  50472720 TCATGAAACTGAAAA
i calJac3.chr21             I 1 C 0
s saiBol1.JH378168            8734305 15 +  13128814 TCATAAAACTGAGAA
i saiBol1.JH378168          I 1 C 0
s dasNov3.JH578070            2527230  3 +   3081153 gca------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I
e cebCap1.NW_016107322v1     13994195 16 -  14377064 I
e canFam3.chr31              18088426 314 +  39895921 I
e aotNan1.NW_018487195v1      9216776 87 -   9889416 I

a score=47160.000000
s hg38.chr21_GL383579v2_alt    200406 149 +    201197 GGCCCCACCT--ATGTTATGTTATAAcataacataacataacataacataacatagcatagcatagcatagcatagcatag---------catagcatagcatagcatagcatagcatGGCAACATAACATAACACAGGGGGCCTTCTCAATTATGTTAT
s panTro5.chr21               8811736 111 +  33445071 GGCCCCATCT--ATGTTATGTTATAATATAAcataacata------------------------------gcatagcatag---------catagcatagcatagcatagcatagcat--------aacataacatagGGGGCCTTCTCAATTATGTTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350872  86 +  46275980 GGCCCCATCT--ATGTTATGTTataatataacataacata----------------------------------------------------------------gcatagcatagcat--------aacataacataGGGGGCCTTCTCAATTATGTTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334762 150 -  13858734 GGCCCCGCGT--ATGTTATGTTATAAcataacatagcatagcatagcatagcatagcatagcatagcatagcatagcatagcatacataacataacataacataacataacataacat--------aacataacatagGGGGCCTTCTCAATTATGTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349556  95 +  32716333 GGCCCTGCCT--ATGTTATGTTATGacataacataacata------------------------------------------------------acataacataacataacataaca---------aacataacataGGGGGCCTTCTCAATTATGTTAT
i nomLeu3.chr25             C 0 C 0
s dasNov3.JH578070            2527233  36 +   3081153 gaTCACACCTGGACATCATGGGATTCAAAAACATAT----------------------------------------------------------------------------------------------------------------------------
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I
e cerAty1.NW_012002954v1     13549133  21 +  21915920 I
e macNem1.NW_012015021v1      5037099  21 -  30496662 I
e macFas5.chr3              167416395   0 - 192294377 C
e rheMac8.chr3              160775544  21 - 185818997 I
e cebCap1.NW_016107322v1     13994195  16 -  14377064 I
e canFam3.chr31              18088426 314 +  39895921 I
e aotNan1.NW_018487195v1      9216776  87 -   9889416 I
e calJac3.chr21              26579998   0 +  50472720 C
e saiBol1.JH378168            8734320   0 +  13128814 C
e colAng1.NW_012120598v1      5325281   0 -  13750039 C
e manLeu1.NW_012103476v1      3571474  22 +   7543664 I
e chlSab2.chr2               20050895  21 -  90373283 I

a score=18887.000000
s hg38.chr21_GL383579v2_alt    200555 4 +    201197 AACA
s panTro5.chr21               8811847 4 +  33445071 AACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350958 4 +  46275980 AACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334912 3 -  13858734 AAC-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349651 4 +  32716333 AACA
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167416395 4 - 192294377 AACA
i macFas5.chr3              C 0 C 0
s colAng1.NW_012120598v1      5325281 4 -  13750039 AACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26579998 4 +  50472720 AACA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734320 4 +  13128814 AACA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994211 4 -  14377064 AACA
i cebCap1.NW_016107322v1    I 16 C 0
s canFam3.chr31              18088740 4 +  39895921 AACA
i canFam3.chr31             I 314 C 0
s dasNov3.JH578070            2527269 4 +   3081153 AACA
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I
e cerAty1.NW_012002954v1     13549133 21 +  21915920 I
e macNem1.NW_012015021v1      5037099 21 -  30496662 I
e rheMac8.chr3              160775544 21 - 185818997 I
e aotNan1.NW_018487195v1      9216776 87 -   9889416 I
e manLeu1.NW_012103476v1      3571474 22 +   7543664 I
e chlSab2.chr2               20050895 21 -  90373283 I

a score=23618.000000
s hg38.chr21_GL383579v2_alt    200559 15 +    201197 TAACATAGG---GGAGGC
s panTro5.chr21               8811851 15 +  33445071 TAACATAGG---GGAGGC
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350962 15 +  46275980 TAACATAGG---GGAGGC
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334915 14 -  13858734 -AACATAGG---GGAGGC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349655 15 +  32716333 CAACATAGG---GGAGGC
i nomLeu3.chr25             C 0 C 0
s macFas5.chr3              167416399 15 - 192294377 TAACATGGGAGTGGG---
i macFas5.chr3              C 0 I 2
s colAng1.NW_012120598v1      5325285 12 -  13750039 TAACATGGG---GGG---
i colAng1.NW_012120598v1    C 0 I 1
s calJac3.chr21              26580002 14 +  50472720 TAACATAGG---GGGTC-
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734324 14 +  13128814 TAACATGGG---GGGGG-
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994215 14 -  14377064 TACCATAGG---GGGGC-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216863 13 -   9889416 TAACATAGG---GGG-C-
i aotNan1.NW_018487195v1    I 87 C 0
s canFam3.chr31              18088744 12 +  39895921 CAATAGAAG---GAA---
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2527273  8 +   3081153 ---TATGAG---GG----
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I
e cerAty1.NW_012002954v1     13549133 21 +  21915920 I
e macNem1.NW_012015021v1      5037099 21 -  30496662 I
e rheMac8.chr3              160775544 21 - 185818997 I
e manLeu1.NW_012103476v1      3571474 22 +   7543664 I
e chlSab2.chr2               20050895 21 -  90373283 I

a score=55768.000000
s hg38.chr21_GL383579v2_alt    200574 5 +    201197 CTTAT
s panTro5.chr21               8811866 5 +  33445071 CTTAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350977 5 +  46275980 CTTAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334929 5 -  13858734 CTTAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349670 5 +  32716333 CTTAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775565 5 - 185818997 CTTAT
i rheMac8.chr3              I 21 C 0
s macFas5.chr3              167416416 5 - 192294377 CTTAT
i macFas5.chr3              I 2 C 0
s macNem1.NW_012015021v1      5037120 5 -  30496662 CTTAT
i macNem1.NW_012015021v1    I 21 C 0
s cerAty1.NW_012002954v1     13549154 5 +  21915920 CTTAT
i cerAty1.NW_012002954v1    I 21 C 0
s chlSab2.chr2               20050916 5 -  90373283 CTTAT
i chlSab2.chr2              I 21 C 0
s manLeu1.NW_012103476v1      3571496 5 +   7543664 CTTAT
i manLeu1.NW_012103476v1    I 22 C 0
s colAng1.NW_012120598v1      5325298 5 -  13750039 CTTAT
i colAng1.NW_012120598v1    I 1 C 0
s calJac3.chr21              26580016 5 +  50472720 CTTTT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734338 5 +  13128814 CTTAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994229 5 -  14377064 CTTAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216876 5 -   9889416 CTCAT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18088756 3 +  39895921 --CAT
i canFam3.chr31             C 0 I 2
s dasNov3.JH578070            2527281 5 +   3081153 CATAT
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23764434 1122 +  47401472 I

a score=320519.000000
s hg38.chr21_GL383579v2_alt    200579 24 +    201197 AATTTTCTTCATTCTTATCTTGAT
s panTro5.chr21               8811871 24 +  33445071 AATTTTCTTCATTCTTATCTTGAT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22350982 24 +  46275980 AATTTTCTTCATTCTTATCTTGAT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334934 24 -  13858734 GATTTTGTTCATTCTTATCTTGAT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349675 24 +  32716333 AATTTTCTTCATTCTTAACTTGAT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775570 24 - 185818997 AATTTTCTTCATTCTTACCTTCAT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416421 24 - 192294377 AATTTTCTTCATTCTTACCTTCAT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037125 24 -  30496662 AATTTTCTTCATTCTTACCTTCAT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549159 24 +  21915920 AATTTTCTTCATTCTTACCTTCAT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050921 24 -  90373283 AATTTTCTTCATTCTTACCTTCAT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571501 24 +   7543664 AATTTTCTTCATTCTTACCTTCAT
i manLeu1.NW_012103476v1    C 0 I 1
s colAng1.NW_012120598v1      5325303 24 -  13750039 AATTTTCTTCATTCTTACCTTCAT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26580021 24 +  50472720 AATCTTCTTCATTCTTACCTTGAT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734343 24 +  13128814 AATTTTCTTCATTCTTACCTTGAT
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994234 24 -  14377064 AATTTTCTTCATTCTTACTTTGAT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216881 24 -   9889416 AATTTTCTTCATTCTTACCTTGAT
i aotNan1.NW_018487195v1    C 0 I 6
s micMur3.chr31              23765556 24 +  47401472 AATTTTCTTCATTCTTAACTTGAT
i micMur3.chr31             I 1122 C 0
s canFam3.chr31              18088761 24 +  39895921 AATTTTTATCATTCTTACTTTGAT
i canFam3.chr31             I 2 C 0
s dasNov3.JH578070            2527286 24 +   3081153 AATCTTCATTATTTTTACCTTGAT
i dasNov3.JH578070          C 0 C 0

a score=73159.000000
s hg38.chr21_GL383579v2_alt    200603 6 +    201197 GTGAAA
s panTro5.chr21               8811895 6 +  33445071 GTGAAA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351006 6 +  46275980 GTGAAA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334958 6 -  13858734 GTGAAA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349699 6 +  32716333 GTGAAA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775594 6 - 185818997 GTGAAA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416445 6 - 192294377 GTGAAA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037149 6 -  30496662 GTGAAA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549183 6 +  21915920 ATGAAA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050945 6 -  90373283 GTGAAA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571526 6 +   7543664 GTGAAA
i manLeu1.NW_012103476v1    I 1 C 0
s colAng1.NW_012120598v1      5325327 6 -  13750039 GTGAAA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26580045 6 +  50472720 ATGAAA
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734367 6 +  13128814 ATGAAA
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994258 6 -  14377064 ATGAAA
i cebCap1.NW_016107322v1    C 0 C 0
s micMur3.chr31              23765580 6 +  47401472 GTGAAA
i micMur3.chr31             C 0 I 207
s canFam3.chr31              18088785 6 +  39895921 GTAAAA
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2527310 6 +   3081153 GTTAAA
i dasNov3.JH578070          C 0 C 0
e aotNan1.NW_018487195v1      9216905 6 -   9889416 I

a score=204946.000000
s hg38.chr21_GL383579v2_alt    200609 37 +    201197 -TAAGGACAACATCTGCAACAGGAGGTTGTGATCACTG
s panTro5.chr21               8811901 37 +  33445071 -TAAGGACAACATCTGCAAGAGGAGGTTGTGATCACTG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351012 37 +  46275980 -TAAGGACAACATCTGCAAGAGGAGGTTGTGATCACTG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8334964 37 -  13858734 -TAAGGACAACATCAGCAAGAGGAGGTTGTGATCACTC
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349705 37 +  32716333 -TAAGGACAACATCAGCAAGAGGAGGCTGTGATCACTC
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775600 36 - 185818997 -TAAGGACAACATCAGCC-GGGGAGGTTGTGATCACTC
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416451 36 - 192294377 -TAAGGACAACATCAGCC-GGGGAGGTTGTGATCACTC
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037155 36 -  30496662 -TAAGGACAACATCAGCT-GGGGAGGTTGTGATCACTC
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549189 36 +  21915920 -TAAGGACAACATCAACC-GGGGAGGTTGTGATCACTC
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050951 37 -  90373283 -TAAGGACAACATCAGCAAGGGGAGGTTGTGATCACTC
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571532 37 +   7543664 -TAAGGACAACATCAGCCAGGGAAGGTTGTGATCACTC
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325333 37 -  13750039 -TAAGGACAACATCAGCAAGGGGAGGTTGTGATCACTC
i colAng1.NW_012120598v1    C 0 C 0
s canFam3.chr31              18088792 32 +  39895921 -TAATGACAACATCAACA-----GACTTGTGATAACTT
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2527316 32 +   3081153 TAAATCACAACA------AAGGCATGCTGTGATAACTC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23765586 207 +  47401472 I
e cebCap1.NW_016107322v1     13994264  0 -  14377064 C
e aotNan1.NW_018487195v1      9216905  6 -   9889416 I
e calJac3.chr21              26580051  0 +  50472720 C
e saiBol1.JH378168            8734373  0 +  13128814 C

a score=1741023.000000
s hg38.chr21_GL383579v2_alt    200646 170 +    201197 TAAGAAACAGCTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTTCACTCATTTGCAAATATTTCAAGGCTTCTTCACTC-TTGAATAT---CAATAAAGCGATGCTCACATTGATATATTCAAGTTTCTCTATTTC-ATTTCTTCATTAGAAGCTCTTTGGTT
s panTro5.chr21               8811938 170 +  33445071 TAAGAAACAGCTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTTCACTCATTTGCAAATATTTCAAGGCTTCTTCACTC-TTGAATAT---CAATAAAGCGATGCTCACATTGATATATTCAAGTTTCTCTATTTC-ATTTCTTCATTAGAAGCTCTTTAGTT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351049 170 +  46275980 TAAGAAACAGCTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTTCACTCATTTGCAAATATTTCAAGGCTTCTTCACTC-TTGAATAT---CAATAAAGCGATGCTCACATTGATATATTCAAGTTTCTCTATTTC-ATTTCTTCATTAGAAGCTCTTTGGTT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335001 169 -  13858734 TAAGAAACAGCTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAATCT-TACTTTCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TTGAATAT---CAATAAAGCGATGCTCACATTGATATATTCACGTTTCTCTATTTCTATTTCTTCATTAGAAGCTCTTTGGTT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349742 170 +  32716333 TAAGAAACAGCTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TTGAATAT---CAATAAGGCCATGCTCACATTGATATATTCACGTTTCTCTATTTCTATTTCTTCATTAGAAGCTCTTTGGTT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775636 164 - 185818997 TAAGAAACAGCATCAGACTTACAAAATCTTTTCTTCTACAGGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TCGAATAT---CAATAATGCCATGCTCACACTGATACATTCACATTTCTCT------ATTGCTTCATTAGAAACTCCTTGGTT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416487 164 - 192294377 TAAGAAACAGCATCAGACTTACAAAATCTTTTCTTCTACAGGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TCAAATAT---CAATAATGCCATGCTCACACTGATACATTCACATTTCTCT------ATTGCTTCATTAGAAACTCCTTGGTT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037191 164 -  30496662 TAAGAAACAGCATCAGACTTACAAAATCTTTTCTTCTACAGGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TCGAATAT---CAATAATGCCATGCTCACACTGATACATTCACATTTCTCT------ATTGCTTCATTAGAAACTCTTTGGTT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549225 164 +  21915920 TAAGAAACAGCTTCAGACTTACAAAATCTTTTCTTCTACAGGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TCGAATAT---CAATAATGCCATGCTCACACTGATATATTCACATTTCTCT------ATTTCTTCATTAGAAACTCTTTGGTT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20050988 164 -  90373283 TAAGAAACAGCTTCAGACTTACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TCGAATAT---CAATAATGCCATGCTCACACTGATATATTCACATTTCTCT------ATTTCTTCATTAGAAACTCTTTGGTT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571569 164 +   7543664 TAAGAAACAGCTTCAGACTTACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TTGAATAT---CAATAATGCCATGCTCACACTGATATATTCACATTTCTCT------ATTTCTTCATTAGAAACTCTTTGGTT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325370 164 -  13750039 TAAGAAACAGCTTCAGACTCACAAAATCTTTTCTTCTACAAGTTAATCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTCCTTCACTC-TCGAATAT---CAATAATGCCATGCTCACACTGATATATTCACTTTTCTCT------GTTTCTTCATTAGAAACTCTTTGGTT
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26580051 169 +  50472720 TAAGAAACAGGTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAGTCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCACTC-TTGAATAT---CAATAATGCCATGCTCACATTGATATACTCAATTTTCTCTATTTCTATTTCCTC-TTAAAAGCTCTTTTGTC
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734373 170 +  13128814 TAAAAAACAGGTTCAGAATTACAAAATCTCTTCTTCTACAAGTTAGTCTGTACTTCCACTCA-TTGCAAATATTTCAAGACTTCTTCAATC-TTGAATAT---CAATAATGCCATGCTCACATTTATATACTCATTTTTCTCTATTTCTATTTTCTCATTAGAAGCTCTTTTGTC
i saiBol1.JH378168          C 0 C 0
s cebCap1.NW_016107322v1     13994264 170 -  14377064 TAAGAAACAGGTTCAGAATTACAAAATCTTTTCTTCTACAAGTTAGTCTGTACTTCCACTCA-TTGCAAAAATTTCAAGATACCTTCACTC-TTGAATAT---CAATAACGCCCTGCTCACATTGATATACTCAATTTTCTCTATTTCTATTTTCTCATTAGGAGCTCTTTTGTC
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9216911 170 -   9889416 TAAGAAACAGGTTCAGAATTACAAAATCTTTTCTTCTACGAGTTAGTCTGTACTTCCACTCA-TTGAAAATATTTCAAGACTTCTTCACTG-TTGAATAT---CGATAATGCCATGCTCACATTGATATATTCAATTTTCTCTATTTCCATTTCCTCTTTAGAAGCTCTTTTGTC
i aotNan1.NW_018487195v1    I 6 C 0
s canFam3.chr31              18088824 168 +  39895921 TATAAAGTAGGTTCAAAACTGCAAAATCT-TTCTTATGCAAGTTACTCTAGATTTCCTCTTA-TTTCAAATATTTGAAGACTTTCTCACTCTTTGGGTATAAATAATAATGTAATA-TCATATTGCTATATTCAAGATTCTCCAT----ATGTCTCCATTAGAAGCTCCATTTAT
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2527348 162 +   3081153 TAAGA---GGTTTTGGAATTGCAAAACCATTCCCTACACAAAC--ATCGTCATTTCCACTTA-TCCCAAATAGTTCAAGACCTCTCATTTT-TT--ATAT---CAGTAATGCCATATTCACACTGACACACTCAAGATTCTTGCTTGC-ACATCCCTTTTAGAAACTCTTTTGTC
i dasNov3.JH578070          C 0 C 0
e micMur3.chr31              23765586 207 +  47401472 I

a score=2804830.000000
s hg38.chr21_GL383579v2_alt    200816 247 +    201197 CACAAAGTTTATTATCTCTAGGAAATGCTACAG-AGGTGCTCTCC--------------TGTTTTTATATATGT--TATCACTCACCTCAGTTACATCATCGTGTATTTTCTTTCTGCTTCAAGCTTCTTGAAGTTTCACTGCATGCAAAATCAC--GTTAAAAGAGAATAATAGCCAATGTTCACGTTACATGTGTC-GTCTGTCAATGGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGATAAATCT
s panTro5.chr21               8812108 247 +  33445071 CACAAAGTTTATTATCTCTAGGAAATGCTACAG-AGGTGCTCTCC--------------TGTTTTTATATATGT--TATCACTCACCTCAGTTACATCATCGTGTATTTTCTTTCTGCTTCAAGCTTCTTGAAGTTTCACTGCATGCAAAATCCC--GTTAAAAGAGAATAATAGCCAATGTTCACATTACATGTGTC-GTCTGTCAATGGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGATAAATCT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351219 247 +  46275980 CACAAAGTTTATTATCTCTAGGAAATGCTACAG-AGGTGCTCTCC--------------TGTTTTTATATATGT--TATCACTCACCTCAGTTACATCATCGTGTATTTTCTTTCTGCTTCAAGCTTCTTGAAGTTTCACTGCATGCAAAATCAC--GTTAAAAGAGAATAATAGCCAATGTTCACATTACATGTGTC-GTCTGTCAATGGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGATAAATCT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335170 248 -  13858734 CACAAAGTTTATTATCTCTAGGAAATGCTACAG-AGGTGCTCTCC--------------TGTTTTTATATATGT--TATCACTCACCTCAGTTACATCATCGTGTATTTTCTTTCTGCTTCAAG-TTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAGGAGAATAATAGCCAATGTTCACATTACATGTGTC-GTCTGTGAATGGTCCCATTCTTTAAATATTGATGCATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9349912 249 +  32716333 CACAAAGTTTATTATCTCTAGGAAATGCTACAG-AGGTGCTCTCC--------------TGTTTTTATATATGT--TATCACTCACCTCAGTTACATCATCGTGTATTTTCTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATAATAGCCAATGCTCACATTACATGTGTC-GTCTGTCAATGGTCCTATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160775800 249 - 185818997 CACAAAGTTTATTATTTCTAGGAAATACTACAG-AGGTGCTCTCC--------------CGTTTTAATGTATGT--TATCACTCACCTCAGTTACATCACCATGTATTTTGTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATGACAGCCAATGTTCACATTACATGTGTC-ATCTGTCAATAGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416651 249 - 192294377 CACAAAGTTTATTATTTCTAGGAAATACTACAG-AGGTGCTCTCC--------------CGTTTTAATGTATGT--TATCACTCACCTCAGTTACATCACCATGTATTTTGTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATGACAGCCAATGTTCACATTACATGTGTC-GTCTGTCAATAGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037355 249 -  30496662 CACAAAGTTTATTATTTCTAGGAAATACTACAG-AGGTGCTCTCC--------------CGTTTTAATGTATGT--TATCACTCACCTCAGTTATATCACCATGTATTTTGTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATGACAGCCAATGTTCACATTACATGTGTC-GTCTGTCAATAGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549389 249 +  21915920 CACAAAGTTTATTATTTCTAGGAAATACTACAG-AGGTGCTCTCC--------------TGTTTGAATGTATGT--TATCACTCACCTCAGTTACATCACCATGTATTTTGTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATGACGGCCAATGTTCACATTACATGTGTC-GTCTGTCAATAGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20051152 228 -  90373283 CACAAAGTTTATTATTTCTAGGAAATACTACAG-AGGTGC-------------------------------------ATCACTCACCTCAGTTACATCACCGTGTATTTTGTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATAACAGCCAATGTTCACATTACATGTGTC-GTCTGTCAATGGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571733 249 +   7543664 CACAAAGTTTATTATTTCTAGGAAATACTACAG-AGGTGCTCTCC--------------TGTTTTAATGTATGT--TATCACTCACCTCAGTTACATCACCATGTATTTTGTTTCTGCTTCAAGCTTCTTGAAGTTTCATTGCATGCAAAATCACATGTTAAAAGAGAATGACAGCCAATGTTCACATTACATGTGTC-GTCTGTCAATAGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCT
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325534 249 -  13750039 CACAAAGTTTATGATTTCTAGGAAATACTACAC-AGGTGCTCTCC--------------TGTTTTAATGTATGT--CATCACTCACCTCAGTTACATCACCGTGTATTTTGTTTCTGCTTCGAGCTTCTTGAAGTTTCATTGCATGCAAAATCACAGGTTAAAAGAGAATAACAGCCAACGTTCACATTGCATGTGTC-GTCTGTCAATGGTCCCATTCTTTAAATATTGATACATTTCTCAATTCTGTTCAGAATTTGCTAAATCG
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26580220 249 +  50472720 CACAAAGTTGGTTATTTCTAGGAAATATTACAG-AGGTGCTCTCT--------------TGTTTTTATATATGT--TATCACTCAGCTCTGTTATATCACTGTGTATTTTCTTTCTTCTTTGAGCTTCTTAAAGTTTCAATGCCTGCAAAACCACATGCTAAAATAGAATAATAGTCAATGTTCCCATTACAGGTGTC-ATTTATCAGTATTCTCATTCTTTAACTATTGATATGTTTCTCAATTATGTTCAGAATTTGCTAAATCT
i calJac3.chr21             C 0 C 0
s saiBol1.JH378168            8734543 242 +  13128814 CACAAAGTTGGTTATTTCTAGGAAATGCTGCAG-AGGTGCTCTCT--------------TGTTTTTATATATGT--TATCACTCAGCTCTGTTACATCACTGTGTGTTTTCTTTCTGCTTCAAGCTTCTTGAAGTTTCAATGCCTGCAAAATCACATGTTAAAAAAGAATAATAGCCAATGTTCACATTACAGGTGTC-ATCTATCAATATTCCCATTCTT----TATTGA---ATTTCTCAATTAtgtacagaaatggataaagct
i saiBol1.JH378168          C 0 N 0
s cebCap1.NW_016107322v1     13994434 245 -  14377064 CACAGAGTTGGTTATTTCTAGGAAATGCTGCAG-AGGTGCTCTCT--------------TGTTTTTGTATATGT--TATCACTCAGCTCTGTTACATCACTGTATGTTATCTTTCTGCTTCAAGATTCTTGAAGTTTCAATGCCTGCAAAATCACATGTTAAAAGAGAATAATAGCCAATGCTCATATTACAGATGTC-ATCTATCAATATTCCCATTCTT----TATTGATGCATTTCTCAATTATGTTCAGAATTTGCTAAATCT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217081 248 -   9889416 CACAAAGCTGGTTATTTCTATGAAATACTACAG-AGGTGGTCTCT--------------TGTTTTCATATATGT--TATCACTCAGCTCTGTTACATCACTGTGTATTTTCTTTCTGCTTCAAGCTTCTTGAAGTTTCAATGCCTGCAAAACCACATGCT-AAAGAGAATAATAGCCAATGTTCACACTACAGGTGTC-ATTTATCAATATTCCCATTCTTTAACTATTGATACATTTCTCAATTATGTTCAGAATTTGCTAAATCT
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23765793 249 +  47401472 CACAAAATCTATTATTTTTAGAAAATGCTACAG-TGGTGCTTTCT--------------TACTTTTCTATATAT--TATTTCTCAGCTCAGTTACATCACCATGTATTTCCTTTTTGCTTTGAGTTCCTTGAAGTTTCAATGCCTGAGAAGTCACATATTGAAAGCTAATAATATCCAATGTCCACACTAGAGGTGTC-ATCTCCCAATGTTTCTATTCTTTGTATATTGGCTCATTTCTCAATTCTGTTCAGAATGTGTCAAATCT
i micMur3.chr31             I 207 C 0
s canFam3.chr31              18088992 260 +  39895921 CATAAAGTCCCTCCTTTCTAGAAAATGCCATGGAAAATGATCTTTtgtgtgtgtgtgtgtgtgtgtgtgtatgC--TATCTCTCAT----GTTATGTCACCATATATTACCTTTCTGCTTAAAATTCCTTGGAGTTTCAATGCTTGAGAAATCACATACTCAAAGCTAGTAAAATCCAATGTCCACCTTAGAAGTATCAATTCCTCAATAGTTCTCTTCTTTGAATATTATCATATTT-TCAATTCTATTCAGGGTATACTAAAGGC
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2527510 219 +   3081153 CACAAAGACCATTATTGCTAGAAAGCATTCTAG-GAATGTTTTCA--------------TGtttttatatatataaaatatatCAGTTCAGTGAAATCATCATTTATTTCCAATCAGCTTAGAGTTCCTTGAAGCTTAAATACCTGAGAAATCATATACTGAAAATGAGTAATAGTCAATGTCTACATCTCCTGTTTC----------------CAGAATTCAAATATCAATGTATTTCTCAATTCTGCT-----------------
i dasNov3.JH578070          C 0 C 0

a score=266882.000000
s hg38.chr21_GL383579v2_alt    201063 29 +    201197 CTTCTCCAT---AACTTG------AACCTGCATTGCTT-
s panTro5.chr21               8812355 29 +  33445071 CTTCTCCAT---AACTTG------AACCTGCATTGCTT-
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351466 29 +  46275980 CTTCTCCAT---AACTTG------AACCTGCATTGCTT-
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335418 29 -  13858734 CTTCTCCAT---AACTTG------AACCTGCATTGCTT-
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9350161 29 +  32716333 CTTCTTCAT---AACTTC------AACCTGCATTGCTT-
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160776049 29 - 185818997 CTTCTCCAT---AATTTG------AACCTGCATTGCTT-
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167416900 29 - 192294377 CTTCTCCAT---AATTTG------AACCTGCATTGCTT-
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5037604 29 -  30496662 CTTCTCCAT---AATTTG------AACCTGCATTGCTT-
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13549638 29 +  21915920 CTTCTCCAT---AGTTTG------AACCTGCATTGCTT-
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20051380 29 -  90373283 CTTCTCCAT---AGTTTG------AACCTGCATTGCTT-
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3571982 29 +   7543664 CTTCTCCAT---AGTTTG------AACCTGCATTGCTT-
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5325783 29 -  13750039 CTTCTCCAT---AATTTG------AAGCTACATTGCTT-
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26580469 29 +  50472720 CTTCTCTTT---AACTTG------AATCTTCATTGATT-
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13994679 29 -  14377064 CTTCTCTTT---AACTTG------AATCTGCATTGCTT-
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217329 29 -   9889416 CTTCTCTTT---AACTTG------AATCTTCATTGATT-
i aotNan1.NW_018487195v1    C 0 C 0
s micMur3.chr31              23766042 32 +  47401472 CTTCTTAATTTGAACTTG------AACCTACATTGCTT-
i micMur3.chr31             C 0 N 0
s canFam3.chr31              18089253 35 +  39895921 CTTCTCCAT---AACTTGAACTTCAACCTGTATAGCTT-
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2527729 13 +   3081153 --------------------------CTTGTATTGCTAT
i dasNov3.JH578070          C 0 C 0

a score=174654.000000
s hg38.chr21_GL383579v2_alt    201092 19 +    201197 TGTTCATAATTTCATGACA
s panTro5.chr21               8812384 19 +  33445071 TGTTCATAATTTCATGACA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351495 19 +  46275980 TGTTCATAATTTCATGACA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335447 19 -  13858734 TGTTCATAATTTCATGACA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9350190 19 +  32716333 TGTTCATAATTTCATGACA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160776078 19 - 185818997 TGTTCATAATTTCATGACA
i rheMac8.chr3              C 0 I 344
s macFas5.chr3              167416929 19 - 192294377 TGTTCATAATTTCATGACA
i macFas5.chr3              C 0 I 343
s macNem1.NW_012015021v1      5037633 19 -  30496662 TGTCCATAATTTCATGACA
i macNem1.NW_012015021v1    C 0 I 342
s cerAty1.NW_012002954v1     13549667 19 +  21915920 TGTTCATAATTTCATGACA
i cerAty1.NW_012002954v1    C 0 I 346
s chlSab2.chr2               20051409 19 -  90373283 TGTTCATAATTTCATGACA
i chlSab2.chr2              C 0 I 396
s manLeu1.NW_012103476v1      3572011 19 +   7543664 TGTTCATAATTTCATGACA
i manLeu1.NW_012103476v1    C 0 I 348
s colAng1.NW_012120598v1      5325812 19 -  13750039 TGTTCATAATTTCATGACA
i colAng1.NW_012120598v1    C 0 C 0
s calJac3.chr21              26580498 19 +  50472720 TGTTCATAACGTAGTGACA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13994708 19 -  14377064 TGTTCATAATTTAGTGACA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217358 19 -   9889416 TGTTCATAACTTAGTGACA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18089288 14 +  39895921 TTGCCATAGTTTCA-----
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2527742 19 +   3081153 TACCCATATCTCTATGAAA
i dasNov3.JH578070          C 0 C 0

a score=170527.000000
s hg38.chr21_GL383579v2_alt    201111 16 +    201197 CTAACTCTTCCGTATT
s panTro5.chr21               8812403 16 +  33445071 CAAACTCTTCCGTATT
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351514 16 +  46275980 CAAACTCTTCCGTATT
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335466 16 -  13858734 CTAACTCTTCCATATT
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9350209 16 +  32716333 CTAACTCTTCCATATT
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160776441 16 - 185818997 CTAACTCTTCCATATT
i rheMac8.chr3              I 344 C 0
s macFas5.chr3              167417291 16 - 192294377 CTAACTCTTCCATATT
i macFas5.chr3              I 343 C 0
s macNem1.NW_012015021v1      5037994 16 -  30496662 CTAACTCTTCCGTATT
i macNem1.NW_012015021v1    I 342 C 0
s cerAty1.NW_012002954v1     13550032 16 +  21915920 CTAACTCTTCCATATT
i cerAty1.NW_012002954v1    I 346 C 0
s chlSab2.chr2               20051824 16 -  90373283 CTAACTCTTCCATATT
i chlSab2.chr2              I 396 C 0
s manLeu1.NW_012103476v1      3572378 16 +   7543664 CTAACTCTTCCATATT
i manLeu1.NW_012103476v1    I 348 C 0
s colAng1.NW_012120598v1      5325831 16 -  13750039 CTAACTCTTCCATAtt
i colAng1.NW_012120598v1    C 0 I 401
s calJac3.chr21              26580517 16 +  50472720 CTAACTCCTCCATATT
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13994727 16 -  14377064 CTAAATCCTCCATATT
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217377 16 -   9889416 CTAACTCCTCCATATT
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18089302 15 +  39895921 -CAATTCTTCCATATT
i canFam3.chr31             C 0 I 1
s dasNov3.JH578070            2527761 16 +   3081153 ATAACTCTTCAATATT
i dasNov3.JH578070          C 0 C 0

a score=56711.000000
s hg38.chr21_GL383579v2_alt    201127 7 +    201197 -TTTAAGG
s panTro5.chr21               8812419 7 +  33445071 -TTTAAGG
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351530 7 +  46275980 -TTTAAGG
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335482 7 -  13858734 -TTTAAGG
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9350225 7 +  32716333 -TTTAAGG
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160776457 7 - 185818997 -TTTAAGA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167417307 7 - 192294377 -TTTAAGA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5038010 7 -  30496662 -TTTAAGA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13550048 7 +  21915920 -TTTAAGA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20051840 7 -  90373283 -TTTAAGA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3572394 7 +   7543664 -TTTAAGA
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26580533 7 +  50472720 -TTTAAGG
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13994743 7 -  14377064 -TTAAAGG
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217393 7 -   9889416 -TTTAAGG
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18089318 7 +  39895921 -TATGAAA
i canFam3.chr31             I 1 C 0
s dasNov3.JH578070            2527777 8 +   3081153 CTATAAGG
i dasNov3.JH578070          C 0 C 0
e colAng1.NW_012120598v1      5325847 401 -  13750039 I

a score=569688.000000
s hg38.chr21_GL383579v2_alt    201134 57 +    201197 AATTGTTAATGCACACAATAATACCTCACTGGTA-------AGCAGAAATAATAGGTTGTACCA
s panTro5.chr21               8812426 57 +  33445071 AATTGTTAATGCACACAATAATACCTCACTGGTA-------AGCAGAAATAATAGGTTGTACCA
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351537 57 +  46275980 AATTGTTAATGCACACAATAATACCTCACTGGTA-------AGCAGAAATAATAGGTTGTACCA
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335489 57 -  13858734 AATTGTTAATGCACACAATAATACCTCACTGGTA-------AGCAGAAATAATAGGTTGTACCA
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9350232 57 +  32716333 AATTGTTAATGCACACAATAATACCTCACTGGTA-------AACAGAAATAATAGGTTGTACCA
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160776464 57 - 185818997 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AACAGAAATAATAGGTTGTACCA
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167417314 57 - 192294377 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AACAGAAATAATAGGTTGTACCA
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5038017 57 -  30496662 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AACAGAAATAATAGGTTGTACCA
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13550055 57 +  21915920 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AACAGAAATAATAGGTTGTACCA
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20051847 57 -  90373283 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AGCAGAAATAATAGGTTGTACCA
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3572401 57 +   7543664 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AACAGAAATAATAGGTTGTACCA
i manLeu1.NW_012103476v1    C 0 C 0
s colAng1.NW_012120598v1      5326248 57 -  13750039 AATTGTTAATGCACACAATAATACCTCACTGGAA-------AACAGAAATAATAGGTTGTACCA
i colAng1.NW_012120598v1    I 401 N 0
s calJac3.chr21              26580540 57 +  50472720 AATTGTTAATGTACACAGTAATACCCCACTGTTA-------AAAACAAATAATAGGTTGTATGA
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13994750 57 -  14377064 AATTGTTAATGTCCACAATAATACCCCACTGGTA-------AACAGAAATAATAAGCTGTACAA
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217400 57 -   9889416 AATTGTTAATGTACACAGTAATACCCCACTGGTA-------AAAAGAAATAATAGGTTGTATGA
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18089325 57 +  39895921 AATTGCAAATGCACACAATGATATCCCATTGGCA-------AGCTGAAATAATAAGTGCTAACA
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2527785 64 +   3081153 AATTATAATTACATACAAATACAGCACGTAGGCAAGAAGGCAAAAGAAATGATAGACTGTGTCA
i dasNov3.JH578070          C 0 C 0

a score=9090.000000
s hg38.chr21_GL383579v2_alt    201191 1 +    201197 T
s panTro5.chr21               8812483 1 +  33445071 T
i panTro5.chr21             C 0 C 0
s panPan2.chr21              22351594 1 +  46275980 T
i panPan2.chr21             C 0 C 0
s gorGor5.CYUI01015003v1      8335546 1 -  13858734 T
i gorGor5.CYUI01015003v1    C 0 C 0
s nomLeu3.chr25               9350289 1 +  32716333 T
i nomLeu3.chr25             C 0 C 0
s rheMac8.chr3              160776521 1 - 185818997 T
i rheMac8.chr3              C 0 C 0
s macFas5.chr3              167417371 1 - 192294377 T
i macFas5.chr3              C 0 C 0
s macNem1.NW_012015021v1      5038074 1 -  30496662 T
i macNem1.NW_012015021v1    C 0 C 0
s cerAty1.NW_012002954v1     13550112 1 +  21915920 T
i cerAty1.NW_012002954v1    C 0 C 0
s chlSab2.chr2               20051904 1 -  90373283 T
i chlSab2.chr2              C 0 C 0
s manLeu1.NW_012103476v1      3572458 1 +   7543664 T
i manLeu1.NW_012103476v1    C 0 C 0
s calJac3.chr21              26580597 1 +  50472720 T
i calJac3.chr21             C 0 C 0
s cebCap1.NW_016107322v1     13994807 1 -  14377064 T
i cebCap1.NW_016107322v1    C 0 C 0
s aotNan1.NW_018487195v1      9217457 1 -   9889416 T
i aotNan1.NW_018487195v1    C 0 C 0
s canFam3.chr31              18089382 1 +  39895921 C
i canFam3.chr31             C 0 C 0
s dasNov3.JH578070            2527849 1 +   3081153 T
i dasNov3.JH578070          C 0 N 0

a score=47831.000000
s hg38.chr21_GL383579v2_alt    201192 5 +    201197 GGTAT
s panTro5.chr21               8812484 5 +  33445071 GGTAT
i panTro5.chr21             C 0 N 0
s panPan2.chr21              22351595 5 +  46275980 GGTAT
i panPan2.chr21             C 0 N 0
s gorGor5.CYUI01015003v1      8335547 5 -  13858734 GGTAT
i gorGor5.CYUI01015003v1    C 0 N 0
s nomLeu3.chr25               9350290 5 +  32716333 GGTAT
i nomLeu3.chr25             C 0 N 0
s rheMac8.chr3              160776522 5 - 185818997 GGTAT
i rheMac8.chr3              C 0 N 0
s macFas5.chr3              167417372 5 - 192294377 GGTAT
i macFas5.chr3              C 0 N 0
s macNem1.NW_012015021v1      5038075 5 -  30496662 GGTAT
i macNem1.NW_012015021v1    C 0 N 0
s cerAty1.NW_012002954v1     13550113 5 +  21915920 GGTAT
i cerAty1.NW_012002954v1    C 0 N 0
s chlSab2.chr2               20051905 5 -  90373283 GGTAT
i chlSab2.chr2              C 0 N 0
s manLeu1.NW_012103476v1      3572459 5 +   7543664 GGTAT
i manLeu1.NW_012103476v1    C 0 N 0
s calJac3.chr21              26580598 5 +  50472720 GGTAT
i calJac3.chr21             C 0 N 0
s cebCap1.NW_016107322v1     13994808 5 -  14377064 GGTAT
i cebCap1.NW_016107322v1    C 0 N 0
s aotNan1.NW_018487195v1      9217458 5 -   9889416 GGTAT
i aotNan1.NW_018487195v1    C 0 N 0
s canFam3.chr31              18089383 5 +  39895921 AGTAT
i canFam3.chr31             C 0 N 0

